chr	start	end	subtype	ratio	min_TSS_dist	symbol
chr7	107945077	107954438	Normal,TNBC-ClaudinLow	9.21	-69143	NRCAM
chr13	34183340	34188448	TNBC-Basal	9.09	65078	STARD13
chrX	40702396	40707188	TNBC-ClaudinLow	8.76	-12343	LOC100132831
chr17	37727989	37733357	LuminaB,HER2	8.54	33502	NEUROD2
chr19	4143647	4147235	TNBC-ClaudinLow	8.45	-8156	CREB3L3
chr5	152928464	152934636	Normal,TNBC-ClaudinLow	8.44	59819	GRIA1
chr19	13160506	13177805	Normal,TNBC-Basal,TNBC-ClaudinLow	8.31	33761	NFIX
chr3	98963781	98974043	Normal	7.82	-348379	DCBLD2
chr3	99351565	99380175	Normal,TNBC-ClaudinLow	7.79	8431	COL8A1
chr18	53455530	53460031	Normal	7.65	129650	LOC101927273
chr7	157356201	157359972	TNBC-ClaudinLow	7.55	9028	MIR153-2
chr2	158099999	158105900	Normal	7.52	-11390	GALNT5
chr4	182885805	182894229	Normal	7.48	175651	LOC90768
chr18	20909313	20914911	LuminaB,LuminaA,TNBC-Basal,HER2	7.4	105813	TMEM241
chr9	139118822	139121991	TNBC-ClaudinLow	7.38	17281	QSOX2
chr8	88759257	88765317	HER2	7.35	124009	DCAF4L2
chr15	40779271	40782990	TNBC-Basal	7.26	17971	CHST14
chr4	32133921	32140657	Normal	7.25	138289	LOC102723828
chr4	187839726	187843724	Normal	7.24	-196738	FAT1
chr14	24157089	24167458	LuminaB,LuminaA,TNBC-Basal,HER2	7.2	56701	DHRS2
chr7	113272926	113281502	Normal	7.19	281868	PPP1R3A
chr4	182871480	182883638	Normal	7.15	188109	LOC90768
chr11	130448193	130453229	Normal	7.11	-85918	MIR8052
chr9	138278861	138290742	LuminaB,LuminaA	7.07	49707	C9orf62
chr6	105069299	105075943	Normal	7.01	235173	HACE1
chr5	141821733	141828851	TNBC-ClaudinLow	6.98	120435	LOC101926941
chr12	59469589	59474679	Normal	6.98	-157815	LRIG3
chr20	39858279	39864260	Normal	6.91	63607	MIR6871
chr13	52984712	52991239	Normal	6.88	-7346	THSD1
chr21	16791734	16798436	Normal	6.87	-307258	USP25
chr1	198085522	198098568	Normal	6.85	-34062	NEK7
chr9	442607	449251	Normal	6.84	-24364	KANK1
chr9	121336779	121342201	Normal,TNBC-ClaudinLow	6.82	792249	BRINP1
chr11	132500992	132504587	TNBC-ClaudinLow	6.81	310248	OPCML
chr11	120386171	120390399	TNBC-ClaudinLow	6.73	5821	GRIK4
chr2	122256661	122265838	Normal	6.69	-27206	RNU4ATAC
chr6	42471372	42475813	TNBC-ClaudinLow	6.57	-53803	TRERF1
chr12	47094458	47098710	Normal	6.51	123196	SLC38A4
chr2	10711464	10719406	TNBC-ClaudinLow	6.49	114678	NOL10
chr1	116849788	116859899	LuminaB,LuminaA,TNBC-Basal,HER2	6.48	-60951	ATP1A1
chr4	62307705	62312175	Normal,TNBC-ClaudinLow	6.46	-52898	LPHN3
chr1	2219835	2225428	Normal,TNBC-ClaudinLow	6.43	61469	LOC100129534
chr14	29044209	29055714	Normal,TNBC-ClaudinLow	6.42	184564	FOXG1-AS1
chr17	35077788	35079828	TNBC-ClaudinLow	6.38	120784	MRM1
chr13	103475136	103480990	Normal,TNBC-ClaudinLow	6.37	18568	BIVM-ERCC5
chr10	94896814	94899741	Normal	6.33	64631	CYP26A1
chr13	38015941	38035707	Normal	6.29	33097	LINC01048
chr12	29884461	29905586	Normal,TNBC-ClaudinLow	6.24	41720	TMTC1
chr14	68427040	68435123	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	6.21	144586	RAD51B
chr8	102496514	102534948	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	6.2	11064	GRHL2
chr7	114781884	114790273	HER2	6.18	67067	LINC01393
chr1	184760279	184763409	Normal,TNBC-ClaudinLow	6.15	-37803	EDEM3
chr5	61210989	61217057	Normal	6.14	-182498	LOC100506526
chr9	76070946	76090255	LuminaB	6.04	313820	ANXA1
chr18	43528884	43539360	Normal,TNBC-ClaudinLow	6.04	13183	EPG5
chr7	140336912	140342685	TNBC-ClaudinLow	6.03	-33154	ADCK2
chr14	68708025	68728563	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	6.02	431799	RAD51B
chr10	78248801	78255043	Normal	6.02	-395879	KCNMA1-AS1
chr8	11364391	11376756	Normal,TNBC-ClaudinLow	6	19053	BLK
chr6	160319567	160324083	Normal	5.99	-6148	MAS1
chr6	83274996	83284564	LuminaB,LuminaA	5.98	205820	TPBG
chr3	59543684	59554342	Normal	5.97	-513298	C3orf67
chr1	245253488	245257182	Normal,TNBC-ClaudinLow	5.96	-62951	KIF26B
chr8	82480196	82484178	LuminaB	5.95	-38637	FABP12
chr4	187759600	187763021	Normal,TNBC-ClaudinLow	5.94	-116323	FAT1
chr18	73199469	73206483	Normal	5.94	-63387	SMIM21
chr18	61117598	61126209	Normal	5.93	-22240	SERPINB5
chr8	125186901	125198685	LuminaB,HER2	5.91	-9030	FER1L6-AS2
chr5	33786394	33796220	TNBC-ClaudinLow	5.91	100817	ADAMTS12
chr3	69416806	69421491	Normal	5.9	16307	FRMD4B
chr11	47925745	47930867	TNBC-ClaudinLow	5.9	-58249	NUP160
chr7	120721836	120727920	Normal,TNBC-ClaudinLow	5.87	95434	CPED1
chr22	36804422	36808333	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	5.86	-22265	MYH9
chr4	90581152	90584259	Normal	5.85	-174846	SNCA-AS1
chr12	65172760	65178076	LuminaB,LuminaA,HER2	5.84	-22192	GNS
chr1	202009704	202021153	LuminaB,LuminaA,TNBC-Basal,HER2	5.84	35739	ELF3
chr5	34569360	34573707	TNBC-ClaudinLow	5.83	-84899	RAI14
chr4	78505750	78510265	Normal	5.82	75101	CXCL13
chr11	86330762	86336315	Normal	5.82	49702	ME3
chr18	57381463	57389941	Normal,TNBC-ClaudinLow	5.81	-21058	CCBE1
chr10	3147647	3152543	Normal,TNBC-ClaudinLow	5.8	-33697	PITRM1-AS1
chr9	94307419	94310558	Normal	5.79	-89544	MIR3910-1
chr4	168815841	168820744	Normal	5.79	-195395	ANXA10
chr5	168586770	168592866	Normal	5.76	100880	MIR585
chr20	18165621	18174999	Normal	5.76	44568	CSRP2BP
chr13	64122764	64129271	LuminaB	5.76	-185550	OR7E156P
chr2	239341275	239351171	Normal,TNBC-ClaudinLow	5.74	10598	ASB1
chr8	69899625	69906032	TNBC-ClaudinLow	5.73	113597	LOC100505718
chr6	138542671	138561615	LuminaB,LuminaA,HER2	5.73	-12516	PBOV1
chr15	35595722	35603364	Normal	5.73	65022	MIR3942
chr7	138525769	138528004	TNBC-ClaudinLow	5.7	-43945	ATP6V0A4
chr12	7583908	7588367	TNBC-ClaudinLow	5.7	10644	CD163L1
chr18	57551512	57554735	Normal,TNBC-ClaudinLow	5.69	-14068	PMAIP1
chr1	202049483	202062063	LuminaB,LuminaA,TNBC-Basal,HER2	5.69	-36255	GPR37L1
chr6	38142121	38148516	LuminaB	5.68	358012	ZFAND3
chr4	69386052	69390096	Normal	5.68	46171	UGT2B17
chr3	4854901	4857513	TNBC-ClaudinLow	5.68	-62933	EGOT
chr6	124521999	124529060	Normal,TNBC-ClaudinLow	5.67	-78621	NKAIN2
chr17	57103161	57107654	LuminaB,LuminaA	5.66	78859	TRIM37
chr1	47213016	47228084	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	5.64	-35814	EFCAB14
chr6	15084688	15093776	LuminaB,LuminaA,HER2	5.61	-156973	JARID2
chr5	142583403	142587123	Normal	5.61	197991	NR3C1
chr19	20958593	20960647	Normal,LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow	5.61	-115218	ZNF626
chr13	114519111	114526926	Normal,TNBC-ClaudinLow	5.6	4436	GAS6-AS1
chr9	116224643	116234327	LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow,HER2	5.59	3506	RGS3
chr17	41805939	41819724	TNBC-ClaudinLow	5.58	23325	SOST
chr7	81232103	81235369	TNBC-ClaudinLow	5.57	21796	LOC100128317
chr7	117692857	117700696	Normal	5.57	-127309	LSM8
chr4	90389336	90392999	Normal	5.57	-162006	GPRIN3
chr8	87209325	87216012	LuminaB,LuminaA	5.56	29936	SLC7A13
chr6	169433865	169437307	Normal	5.56	147249	LOC101929504
chr13	33911575	33926415	LuminaB,LuminaA,TNBC-ClaudinLow	5.56	-59094	STARD13
chr19	41424504	41447038	LuminaB,LuminaA,HER2	5.55	5602	CYP2B7P
chr12	97890979	97899540	LuminaB,LuminaA	5.54	9573	MIR1251
chr3	153331217	153334020	Normal	5.53	130335	C3orf79
chr10	78107842	78114916	Normal,TNBC-ClaudinLow	5.53	-536422	KCNMA1-AS1
chr21	38090170	38092837	Normal,TNBC-Basal	5.51	20071	SIM2
chr11	128361016	128381360	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	5.51	21017	ETS1
chr8	34694108	34697225	Normal	5.5	54228	LINC01288
chr2	237675950	237681195	Normal,TNBC-ClaudinLow	5.5	200193	ACKR3
chr6	5496325	5501462	TNBC-ClaudinLow	5.49	-40585	LOC101927972
chr1	78565475	78570787	Normal,TNBC-ClaudinLow	5.49	56543	GIPC2
chrX	142202119	142205911	LuminaB	5.48	90312	SPANXN4
chr9	118402208	118407680	Normal	5.48	101574	LOC101928775
chr8	81271362	81296103	LuminaB,HER2	5.47	-114121	ZBTB10
chr4	41523288	41529222	TNBC-ClaudinLow	5.47	-88533	LIMCH1
chr21	39690826	39699512	Normal	5.46	22829	LINC01423
chr1	192525812	192530752	Normal,TNBC-ClaudinLow	5.46	-16574	RGS1
chr1	152160676	152162816	TNBC-ClaudinLow	5.46	-30042	RPTN
chrX	38091010	38094608	TNBC-ClaudinLow	5.45	-12632	SRPX
chr6	90805757	90810992	Normal	5.44	198253	BACH2
chr2	68097478	68101293	TNBC-ClaudinLow	5.44	-46691	LOC101927701
chr8	13301763	13306259	Normal	5.43	68418	DLC1
chr7	134972412	134980383	Normal	5.43	59667	STRA8
chr5	97641934	97652978	Normal,TNBC-ClaudinLow	5.43	-457542	RGMB
chr1	64133602	64136791	TNBC-Basal	5.43	46310	PGM1
chr2	230226932	230229798	Normal	5.41	-92308	PID1
chr4	57925819	57953331	Normal,TNBC-ClaudinLow	5.4	-36352	IGFBP7-AS1
chr17	36710234	36778244	LuminaB	5.4	17944	SRCIN1
chr8	74254947	74262698	HER2	5.39	9874	LOC101926926
chr6	151925891	152031173	LuminaB,LuminaA	5.37	-33098	ESR1
chr19	46975941	46980784	Normal	5.37	-3542	PNMAL1
chr18	74161575	74164205	Normal,TNBC-ClaudinLow	5.37	44256	ZNF516
chr2	121100158	121118720	LuminaB,LuminaA,HER2	5.36	5721	INHBB
chrX	102658459	102660961	TNBC-ClaudinLow	5.35	27602	NGFRAP1
chr6	3162007	3164349	Normal,LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow	5.35	-5395	TUBB2A
chr4	165456407	165460002	Normal	5.35	31663	MIR5684
chr12	102931249	102936024	TNBC-ClaudinLow	5.35	-59258	IGF1
chr11	75312945	75316996	TNBC-ClaudinLow	5.35	41870	SERPINH1
chr20	18203348	18208337	Normal	5.34	-63084	ZNF133
chr7	40335347	40348912	Normal	5.32	167555	SUGCT
chr7	158526432	158530162	TNBC-ClaudinLow	5.32	-30775	NCAPG2
chr3	156322829	156325365	TNBC-ClaudinLow	5.31	-51124	SSR3
chr19	33320580	33322901	TNBC-ClaudinLow	5.31	38943	SLC7A9
chr12	25844466	25849821	Normal	5.31	-45647	LMNTD1
chr3	69457837	69462942	Normal	5.3	-24934	FRMD4B
chr7	1436037	1439124	TNBC-ClaudinLow	5.29	61529	MICALL2
chr6	73261537	73266144	Normal,TNBC-ClaudinLow	5.29	-67730	KCNQ5
chr20	31706479	31709700	TNBC-ClaudinLow	5.29	38772	BPIFB4
chr13	40741533	40752233	Normal	5.29	-9062	LINC00332
chr9	94156288	94159906	Normal,TNBC-ClaudinLow	5.28	28047	NFIL3
chr16	70836923	70841446	Normal,TNBC-ClaudinLow	5.28	-4123	VAC14
chr10	101731802	101739745	Normal	5.28	33903	DNMBP
chrX	47520098	47523368	TNBC-ClaudinLow	5.27	-3154	UXT
chr12	47176703	47184258	Normal	5.27	39300	SLC38A4
chr12	25849868	25856012	Normal	5.27	-51444	LMNTD1
chr6	68816067	68821042	TNBC-ClaudinLow	5.25	53312	LOC102723883
chr16	80750660	80758047	LuminaB,LuminaA,HER2	5.25	83822	CDYL2
chr15	29252864	29254577	TNBC-ClaudinLow	5.22	39881	APBA2
chr2	216317030	216329010	Normal	5.21	4591	LOC102724849
chr5	54055405	54058486	TNBC-ClaudinLow	5.19	-16859	LOC102467080
chr15	76127945	76131104	Normal	5.19	-6102	UBE2Q2
chr12	66086308	66093917	Normal	5.19	-53960	LOC100507065
chr11	37806732	37812200	Normal	5.19	858440	LOC103312105
chr7	32624703	32630015	TNBC-ClaudinLow	5.18	92184	AVL9
chr2	114035926	114048312	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	5.18	-5621	PAX8
chr18	57444775	57451459	Normal,TNBC-ClaudinLow	5.18	-83473	CCBE1
chrX	40652283	40655024	TNBC-ClaudinLow	5.17	38796	LOC100132831
chr7	111639514	111643853	Normal,TNBC-ClaudinLow	5.16	193123	DOCK4-AS1
chr4	109265084	109269668	Normal	5.16	174101	LEF1-AS1
chr16	14601806	14606981	Normal	5.16	119735	PARN
chr1	10132824	10136370	Normal	5.16	41557	UBE4B
chr11	13289147	13292850	Normal	5.14	-8275	ARNTL
chr6	107564964	107570652	Normal	5.13	-132172	BEND3
chr1	215128042	215133902	Normal,TNBC-ClaudinLow	5.13	-47912	KCNK2
chr9	32421228	32432706	TNBC-ClaudinLow	5.12	42367	ACO1
chr9	138882431	138886603	TNBC-ClaudinLow	5.12	-31291	UBAC1
chr12	23235199	23238997	Normal	5.11	-91471	LOC101928441
chr12	122360597	122366592	Normal,TNBC-ClaudinLow	5.1	7132	WDR66
chr8	38169234	38174872	Normal	5.09	-45315	PPAPDC1B
chr10	28375293	28379909	Normal,TNBC-ClaudinLow	5.09	-89617	ARMC4
chr4	22969316	22973401	TNBC-ClaudinLow	5.08	255647	GBA3
chr19	34763894	34767059	Normal	5.08	20021	KIAA0355
chr1	53100776	53104630	Normal	5.08	3638	FAM159A
chr9	38224416	38230966	LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow,HER2	5.07	-158481	SHB
chr7	73413238	73418774	Normal,TNBC-Basal,TNBC-ClaudinLow	5.07	-26112	ELN
chr9	20294936	20301277	Normal	5.06	113130	MIR4473
chr9	117654220	117659118	TNBC-ClaudinLow	5.06	36206	TNFSF8
chr8	16566794	16578047	Normal,TNBC-ClaudinLow	5.06	287254	FGF20
chr21	36300840	36313353	Normal	5.05	-46109	RUNX1
chr4	77378337	77382726	Normal,TNBC-Basal,TNBC-ClaudinLow	5.04	24279	SHROOM3
chr14	85901422	85911660	Normal	5.04	46283	LINC00911
chr13	40763352	40766428	Normal	5.04	8945	LINC00332
chr5	143565955	143572970	Normal	5.03	19026	KCTD16
chr4	4269107	4273699	Normal,TNBC-ClaudinLow	5.03	20345	LYAR
chr4	32140888	32143936	Normal	5.03	143412	LOC102723828
chr2	28393673	28397316	Normal	5.03	34334	LOC100505736
chr14	21173404	21177802	HER2	5.03	18668	RNASE4
chrX	110281903	110286421	Normal,TNBC-ClaudinLow	5.02	-55212	PAK3
chr11	130714509	130720987	Normal,TNBC-ClaudinLow	5.02	14257	LOC100507431
chr7	3232656	3236140	TNBC-ClaudinLow	5.01	-36192	LOC100129603
chr12	76097921	76102437	TNBC-ClaudinLow	5.01	-194761	KRR1
chr7	99333714	99340294	Normal	5	-4181	CYP3A7
chr7	123884249	123888391	Normal	5	105830	LOC101928211
chr18	57408480	57414573	Normal,TNBC-ClaudinLow	5	-46882	CCBE1
chr10	49795604	49799304	Normal	5	15722	ARHGAP22
chr6	139859245	139862869	TNBC-ClaudinLow	4.99	-65324	LOC645434
chr15	101496210	101500871	TNBC-ClaudinLow	4.99	39081	LRRK1
chr3	168801913	168805454	Normal	4.98	60410	MECOM
chr3	129198316	129207758	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	4.98	-44015	MBD4
chr20	49942388	49946436	Normal	4.98	125102	MIR3194
chr18	46446633	46452516	Normal	4.98	19603	SMAD7
chr5	10286235	10291188	LuminaB,LuminaA,TNBC-Basal,HER2	4.97	19457	CMBL
chr4	7003953	7007961	Normal	4.97	16723	TBC1D14
chr3	135231338	135235911	TNBC-ClaudinLow	4.97	-450890	PPP2R3A
chr15	85854166	85859013	TNBC-ClaudinLow	4.97	-67257	AKAP13
chr15	29961229	29968861	Normal,TNBC-ClaudinLow	4.97	-102118	FAM189A1
chr13	67506666	67509450	Normal	4.97	-43462	PCDH9-AS3
chr12	120830732	120833912	LuminaB,LuminaA,TNBC-Basal,HER2	4.96	-25339	MSI1
chr6	124542667	124551146	Normal,TNBC-ClaudinLow	4.95	-57244	NKAIN2
chr5	67340552	67344447	Normal	4.95	-143204	LOC102467655
chr2	129502107	129506950	Normal	4.95	-117645	LOC101927881
chr12	24767898	24771667	TNBC-ClaudinLow	4.95	-32680	LINC00477
chr11	128040384	128053368	Normal,TNBC-Basal,TNBC-ClaudinLow	4.95	345329	ETS1
chr11	100605026	100612736	TNBC-ClaudinLow	4.95	50475	ARHGAP42
chr10	17063782	17073267	Normal,TNBC-ClaudinLow	4.95	103292	CUBN
chr6	128925482	128928997	Normal	4.94	-85420	PTPRK
chr15	52434553	52438643	Normal,TNBC-ClaudinLow	4.94	-31626	BCL2L10
chr15	48763705	48766437	TNBC-ClaudinLow	4.94	140707	DUT
chr5	136820878	136824399	Normal	4.93	12380	SPOCK1
chr5	121515062	121521079	Normal,TNBC-Basal,TNBC-ClaudinLow	4.93	22200	LOC100505841
chr4	53964369	53969572	Normal,TNBC-ClaudinLow	4.93	238476	RASL11B
chr15	95216455	95218728	Normal	4.92	-181000	LOC440311
chr9	125163700	125166382	TNBC-ClaudinLow	4.91	27441	PTGS1
chr19	6100866	6105756	Normal	4.91	7353	RFX2
chr5	123596455	123603230	LuminaB,LuminaA,HER2	4.9	174371	LINC01170
chr4	54826789	54831410	Normal	4.9	24350	RPL21P44
chr2	159744323	159751794	Normal	4.9	-77087	TANC1
chr18	60432916	60437355	Normal	4.9	52464	PHLPP1
chr20	6301879	6303826	HER2	4.89	-104526	CASC20
chr13	46053841	46058690	Normal	4.89	17236	COG3
chr12	75261738	75268994	LuminaB,LuminaA	4.89	333816	ATXN7L3B
chr6	1951507	1955076	Normal,TNBC-ClaudinLow	4.88	222934	GMDS
chr3	25613432	25616654	TNBC-ClaudinLow	4.88	90820	TOP2B
chr7	54855569	54857480	TNBC-Basal	4.87	29519	LOC100996654
chr7	18933543	18936857	Normal,TNBC-ClaudinLow	4.87	222095	TWIST1
chr6	113422871	113427011	Normal	4.87	546336	LOC101927686
chr3	156496413	156512251	Normal	4.87	25478	PA2G4P4
chr2	216473543	216475456	Normal	4.87	156070	LOC102724849
chr16	17391770	17401487	LuminaB,LuminaA,HER2	4.87	168110	XYLT1
chr3	111109855	111113915	Normal	4.86	-149040	CD96
chr13	41018378	41021490	Normal	4.86	35209	LINC00598
chr10	14226010	14228082	TNBC-ClaudinLow	4.86	110764	LOC101928453
chr1	52434110	52437590	TNBC-ClaudinLow	4.86	20586	RAB3B
chr20	6539554	6549246	Normal	4.85	137022	CASC20
chr20	62639316	62643302	HER2	4.85	-24387	LINC00176
chr15	59630211	59633478	Normal	4.85	33227	MYO1E
chr5	81681023	81688308	Normal,TNBC-ClaudinLow	4.84	109385	ATP6AP1L
chr4	47851172	47856936	Normal	4.84	-13931	CORIN
chr4	166885080	166897148	Normal	4.83	96705	TLL1
chr13	75459542	75470210	Normal	4.83	337897	LINC00347
chr1	25273171	25279524	Normal	4.83	15154	RUNX3
chr7	154856976	154859312	TNBC-ClaudinLow	4.82	-3889	HTR5A
chr2	1730702	1737607	Normal,TNBC-Basal,TNBC-ClaudinLow	4.82	14165	PXDN
chr16	19605342	19608396	Normal	4.82	40133	C16orf62
chr9	107667469	107671809	TNBC-ClaudinLow	4.8	20888	ABCA1
chr3	152938363	152941220	Normal,TNBC-ClaudinLow	4.8	59791	RAP2B
chr2	173123539	173128241	Normal	4.8	158157	DLX2-AS1
chr1	198074175	198080680	Normal	4.8	-48680	NEK7
chr4	74524576	74531662	Normal,TNBC-ClaudinLow	4.79	-41771	RASSF6
chr13	51189035	51194097	Normal	4.79	-89981	DLEU1-AS1
chr3	168743068	168749125	Normal	4.78	117997	MECOM
chr19	46968499	46972278	Normal	4.76	4432	PNMAL1
chr18	57414686	57422561	Normal,TNBC-ClaudinLow	4.76	-53979	CCBE1
chr18	53166036	53169128	Normal	4.76	10418	TCF4
chr10	124268464	124271161	Normal	4.76	48772	HTRA1
chr9	76127618	76134103	LuminaB	4.75	364080	ANXA1
chr7	138570417	138580142	LuminaB,LuminaA,HER2	4.75	90785	KIAA1549
chr12	130256062	130258279	TNBC-ClaudinLow	4.75	131042	TMEM132D
chr2	83021496	83024608	Normal,TNBC-ClaudinLow	4.74	-60874	LOC1720
chr10	105658340	105662701	Normal	4.74	17525	OBFC1
chr8	32542642	32545370	Normal	4.73	-35344	NRG1
chr7	90010984	90015319	Normal,TNBC-ClaudinLow	4.73	-12454	LOC101409256
chr2	96054092	96055603	TNBC-ClaudinLow	4.73	-13600	FAHD2A
chr18	77544828	77549165	TNBC-ClaudinLow	4.73	-76671	KCNG2
chr17	56452055	56471315	LuminaB,LuminaA	4.73	-32086	SUPT4H1
chr15	39005548	39008488	Normal	4.72	18220	C15orf53
chr6	157467998	157473814	Normal,TNBC-ClaudinLow	4.71	274385	TMEM242
chr1	210565318	210569445	Normal	4.7	64742	HHAT
chr4	190935262	190937273	TNBC-ClaudinLow	4.69	12145	FRG2
chr1	41471262	41474505	Normal	4.69	-7378	SLFNL1-AS1
chr9	133731780	133738053	TNBC-ClaudinLow	4.68	24275	ABL1
chr22	31223398	31229813	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	4.68	8103	OSBP2
chr12	40550857	40553925	Normal	4.68	-52730	SLC2A13
chr18	2048686	2052281	Normal	4.67	521006	METTL4
chr11	8691038	8694670	Normal,TNBC-ClaudinLow	4.67	-11140	RPL27A
chr9	72730343	72738382	Normal	4.66	56442	MAMDC2-AS1
chr19	4129265	4133533	Normal,TNBC-Basal,TNBC-ClaudinLow	4.66	-7273	MAP2K2
chr12	86657623	86660551	LuminaB	4.66	287642	MIR548AL
chr1	59226466	59232566	Normal,TNBC-ClaudinLow	4.66	20269	JUN
chr9	67298340	67303487	Normal,TNBC-ClaudinLow	4.65	-11421	AQP7P1
chr1	59619590	59623983	TNBC-ClaudinLow	4.65	-9307	HSD52
chr13	95619157	95621458	TNBC-ClaudinLow	4.64	207113	LOC101927284
chr11	27992403	27996132	TNBC-ClaudinLow	4.64	-84094	MIR610
chr2	122345220	122347239	Normal	4.63	57774	RNU4ATAC
chrX	154024502	154030820	TNBC-ClaudinLow	4.62	6141	MPP1
chrX	71420488	71423575	Normal,TNBC-ClaudinLow	4.61	20506	PIN4
chr8	32439494	32442716	Normal	4.61	-12238	NRG1
chr22	46390398	46395688	Normal	4.61	-9452	LOC730668
chr20	3197312	3209001	TNBC-Basal,HER2	4.61	13023	ITPA
chr15	38418922	38425414	Normal,TNBC-ClaudinLow	4.61	89575	LOC101928227
chr9	117037225	117043907	Normal,TNBC-ClaudinLow	4.6	-44736	ORM1
chr5	53697223	53702493	Normal	4.6	-51572	HSPB3
chr4	159377733	159384698	Normal	4.6	-61650	RXFP1
chr4	124905201	124910142	Normal	4.6	212253	LINC01091
chr3	59408869	59414948	Normal	4.6	-376193	C3orf67
chr20	57031365	57038923	Normal	4.6	54805	APCDD1L
chr14	97571233	97576823	TNBC-ClaudinLow	4.6	164113	LINC00618
chr13	93976831	93982173	LuminaB	4.6	100425	GPC6
chrX	67918883	67921136	TNBC-ClaudinLow	4.59	6528	STARD8
chr7	45911784	45917133	TNBC-ClaudinLow	4.59	-13500	IGFBP1
chr17	47949321	47998712	LuminaB,LuminaA,TNBC-Basal,HER2	4.59	-48637	TAC4
chr9	76055709	76070780	LuminaB	4.58	296464	ANXA1
chr7	86943776	86949662	Normal,LuminaB,LuminaA,HER2	4.58	28089	TP53TG1
chr7	136636782	136644174	TNBC-ClaudinLow	4.58	52565	MIR490
chr12	115591564	115597765	Normal	4.58	-472695	TBX3
chr18	38700129	38703173	Normal	4.57	398910	KC6
chr4	22626237	22628098	TNBC-ClaudinLow	4.56	-67369	GBA3
chr18	7036879	7039881	Normal,TNBC-Basal,TNBC-ClaudinLow	4.56	79433	LAMA1
chr6	134135021	134137393	TNBC-ClaudinLow	4.55	-6077	LINC01312
chr2	193099912	193101932	TNBC-ClaudinLow	4.55	-41278	TMEFF2
chr18	59614272	59621919	Normal	4.55	-57791	RNF152
chr1	153496990	153501344	Normal	4.55	9550	S100A6
chr7	121599466	121602544	Normal,TNBC-ClaudinLow	4.54	87847	PTPRZ1
chr2	202660354	202665598	Normal,TNBC-ClaudinLow	4.54	-8175	CDK15
chr2	15308466	15311775	Normal,TNBC-ClaudinLow	4.54	391352	NBAS
chr10	50384379	50386778	TNBC-ClaudinLow	4.54	10867	C10orf128
chr16	85476456	85485050	LuminaB,LuminaA	4.53	-140822	MIR5093
chr1	159230221	159233242	Normal	4.53	-27772	FCER1A
chr8	32781740	32784076	Normal	4.52	203558	NRG1
chr14	55678853	55680580	Normal	4.52	-21320	DLGAP5
chr22	21898968	21899365	TNBC-ClaudinLow	4.51	-4569	UBE2L3
chr18	44045878	44052165	LuminaB,LuminaA,HER2	4.51	50028	LOXHD1
chr9	95266119	95271241	Normal,TNBC-Basal,TNBC-ClaudinLow	4.5	21660	MIR4670
chr3	188570191	188575708	Normal	4.5	92479	TPRG1-AS1
chr7	46198740	46206390	Normal	4.49	-241694	IGFBP3
chr2	233179011	233182014	Normal,TNBC-ClaudinLow	4.49	-62835	ALPP
chr14	81794327	81799117	Normal	4.49	96834	STON2
chr6	4054078	4062104	Normal,TNBC-ClaudinLow	4.48	-21348	C6orf201
chr3	57434830	57439009	TNBC-ClaudinLow	4.48	93152	DNAH12
chr2	100667797	100697461	LuminaB,LuminaA	4.48	39416	AFF3
chr5	97442470	97447481	Normal,TNBC-ClaudinLow	4.47	604576	LINC01340
chr4	187764449	187767577	Normal,TNBC-ClaudinLow	4.47	-121026	FAT1
chr3	98501526	98507018	Normal,TNBC-ClaudinLow	4.47	52725	ST3GAL6
chr13	97422119	97426772	TNBC-Basal	4.47	211981	LINC00359
chr13	40484884	40491574	Normal	4.47	-249957	MIR4305
chr3	171589399	171597672	Normal,TNBC-Basal,TNBC-ClaudinLow	4.46	24995	TMEM212-AS1
chr2	216387816	216408006	Normal,TNBC-ClaudinLow	4.46	79482	LOC102724849
chr1	150970031	150972957	TNBC-ClaudinLow	4.46	7779	FAM63A
chr3	57501725	57507309	TNBC-ClaudinLow	4.45	25554	DNAH12
chr14	89768884	89772316	TNBC-ClaudinLow	4.45	112854	FOXN3
chr10	31071791	31074991	TNBC-ClaudinLow	4.45	92189	SVILP1
chr9	112825853	112835901	TNBC-ClaudinLow	4.44	20000	AKAP2
chr19	38663568	38665236	Normal	4.44	50488	DPF1
chr6	122100120	122103758	Normal	4.43	345217	GJA1
chr2	24330640	24336365	Normal	4.43	12649	PFN4
chr2	237085859	237090146	TNBC-ClaudinLow	4.43	-11350	GBX2
chr2	147629567	147634576	Normal,TNBC-ClaudinLow	4.43	287447	PABPC1P2
chr5	61176492	61178948	Normal	4.42	-146195	LOC100506526
chr17	20811006	20813201	Normal,LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow	4.42	-12650	CCDC144NL
chrX	101240490	101243112	TNBC-ClaudinLow	4.41	-54762	ZMAT1
chr7	115815629	115818520	Normal	4.41	-33472	TES
chr6	63708728	63710825	Normal	4.41	320106	LGSN
chr4	15451273	15458266	Normal,TNBC-ClaudinLow	4.41	-16719	CC2D2A
chr4	115191308	115195249	Normal	4.41	-292400	ARSJ
chr21	19079192	19085132	Normal	4.41	82664	C21orf91-OT1
chr12	32027151	32029404	TNBC-ClaudinLow	4.41	-83102	H3F3C
chr1	10122850	10130833	Normal	4.41	33801	UBE4B
chrX	102756330	102759496	Normal	4.4	16504	RAB40A
chr4	133100267	133102594	Normal	4.39	-410813	LINC01256
chr21	18978809	18981897	Normal	4.39	4915	BTG3
chr10	13828274	13833188	TNBC-ClaudinLow	4.39	201793	PRPF18
chr2	57405893	57411001	Normal,TNBC-ClaudinLow	4.38	-726338	VRK2
chr9	129927328	129930758	TNBC-ClaudinLow	4.37	-43999	ANGPTL2
chr19	11378923	11381101	Normal	4.37	-6844	DOCK6
chr13	101957636	101963484	Normal	4.37	108253	NALCN
chr9	73516441	73519238	Normal,TNBC-ClaudinLow	4.36	-33865	TRPM3
chr21	29064535	29066981	Normal	4.36	-28939	LINC00113
chr20	60010082	60013703	Normal	4.36	-62584	CDH4
chr1	232061331	232068328	Normal	4.36	-110566	DISC2
chr1	182931051	182933437	Normal	4.36	-9691	SHCBP1L
chr9	79771427	79775542	Normal	4.35	-18876	VPS13A
chr8	8647093	8649995	TNBC-ClaudinLow	4.35	88879	CLDN23
chr15	79047671	79054753	Normal	4.35	6834	LOC646938
chr10	27020292	27028450	LuminaB	4.35	37777	PDSS1
chr1	47873124	47878413	Normal	4.35	-5975	FOXE3
chrX	46440940	46443920	Normal,TNBC-ClaudinLow	4.34	9309	CHST7
chr9	136422601	136425513	TNBC-ClaudinLow	4.34	21311	FAM163B
chr8	81011857	81018762	LuminaB,HER2	4.34	-22243	TPD52
chr7	90793170	90796806	Normal	4.34	-98794	FZD1
chr5	136749030	136753188	Normal	4.34	83909	SPOCK1
chr8	27202589	27216414	Normal	4.33	26421	PTK2B
chr2	3667150	3670070	Normal	4.33	14969	COLEC11
chr18	46577062	46583722	TNBC-ClaudinLow	4.33	-4254	MIR4744
chr13	86288401	86294660	LuminaB	4.33	81953	SLITRK6
chr3	58858665	58867085	Normal	4.31	52679	C3orf67-AS1
chr13	51109242	51112658	Normal	4.31	-9365	DLEU1-AS1
chr12	59458539	59466486	Normal	4.31	-148193	LRIG3
chr15	60117907	60124805	Normal,TNBC-Basal	4.3	-139714	BNIP2
chr11	111714841	111719374	TNBC-ClaudinLow	4.3	24897	ALG9
chr9	33945358	33948674	Normal	4.29	5836	SNORD121A
chr4	124751617	124756138	Normal,TNBC-ClaudinLow	4.29	58459	LINC01091
chr1	110654548	110664232	LuminaB,LuminaA,TNBC-Basal,HER2	4.29	4329	UBL4B
chr14	87597298	87601944	Normal	4.28	227500	LOC283585
chr10	112081500	112089295	Normal,TNBC-ClaudinLow	4.28	-20690	SMNDC1
chr16	1948468	1951940	LuminaB,LuminaA,HER2	4.27	-15972	LINC00254
chr7	74172189	74173700	Normal,TNBC-ClaudinLow	4.26	-15364	NCF1
chr18	61496158	61503580	Normal	4.26	54859	SERPINB7
chr1	192511996	192516828	Normal,TNBC-ClaudinLow	4.26	-30444	RGS1
chr9	85768033	85771305	Normal	4.25	-91626	RASEF
chr5	33298844	33301359	Normal	4.25	-140700	TARS
chr21	30526756	30529287	Normal	4.25	10142	MAP3K7CL
chr7	499167	503401	TNBC-ClaudinLow	4.24	58197	PDGFA
chr4	39447184	39450757	LuminaB,LuminaA	4.24	11237	RPL9
chr12	76651716	76675065	Normal,TNBC-ClaudinLow	4.24	78832	BBS10
chr1	11788858	11792855	TNBC-ClaudinLow	4.24	-5285	AGTRAP
chr5	40982434	40993634	Normal	4.23	78436	C7
chr10	60383263	60386697	Normal	4.23	-89794	FAM133CP
chr6	13301594	13309787	Normal,TNBC-ClaudinLow	4.22	-9872	LOC100130357
chr18	51672937	51679433	Normal,TNBC-ClaudinLow	4.22	72597	SNORA37
chr14	75686199	75690847	Normal	4.22	-45174	TMED10
chr3	11570194	11573360	Normal	4.21	38621	VGLL4
chr3	110530775	110536356	Normal,TNBC-ClaudinLow	4.21	255241	PVRL3-AS1
chr2	61173762	61178559	Normal	4.21	67531	REL
chr18	71279545	71284067	Normal	4.21	289631	LOC100505817
chr1	16244653	16252478	Normal	4.21	54062	ZBTB17
chr5	137215262	137220575	Normal	4.2	-7206	PKD2L2
chr19	15671842	15676340	LuminaB,LuminaA,TNBC-Basal,HER2	4.2	-51937	CYP4F8
chr10	60610383	60618217	Normal,TNBC-ClaudinLow	4.2	139526	FAM133CP
chr6	145863901	145866774	Normal	4.19	-190667	LOC100507557
chr6	120046715	120051659	LuminaB,LuminaA,TNBC-Basal,HER2	4.19	-236720	LOC285762
chr4	27163791	27174169	LuminaB	4.19	-50120	LOC101929199
chr19	52204006	52209886	Normal,LuminaB,LuminaA,TNBC-ClaudinLow,HER2	4.19	-10237	SPACA6P-AS
chr16	13545076	13549231	Normal	4.18	-466860	ERCC4
chr1	97847903	97852622	Normal	4.18	288784	DPYD-AS1
chr1	55885044	55888907	TNBC-ClaudinLow	4.18	195662	MIR4422
chr7	140348521	140353735	TNBC-ClaudinLow	4.17	-21824	ADCK2
chr4	74780576	74786441	Normal,TNBC-ClaudinLow	4.17	48400	CXCL1
chr2	142974080	142979684	Normal	4.17	-87612	LRP1B
chr4	138964843	138967624	Normal	4.16	-43934	SLC7A11-AS1
chr2	238464181	238470571	LuminaB,LuminaA	4.16	-7840	PRLH
chr19	53684272	53688444	TNBC-ClaudinLow	4.16	10261	ZNF665
chr12	77512662	77517572	Normal,TNBC-ClaudinLow	4.16	-55757	E2F7
chr18	59658007	59667802	Normal,TNBC-ClaudinLow	4.15	-102600	RNF152
chr12	27691109	27697692	Normal	4.15	17356	PPFIBP1
chr4	75192132	75195422	Normal	4.14	19591	EPGN
chr11	77859805	77871104	LuminaB,LuminaA	4.14	14616	KCTD21-AS1
chr5	66698681	66702516	Normal	4.13	-207981	CD180
chr18	70901543	70904978	Normal	4.13	28473	LOC400655
chr9	76179109	76182373	LuminaB	4.12	413961	ANXA1
chr7	5727610	5737372	Normal,TNBC-ClaudinLow	4.12	-12399	RNF216-IT1
chr2	43984831	43988045	Normal	4.12	-14739	DYNC2LI1
chrX	149490580	149496145	TNBC-ClaudinLow	4.11	-38182	MAMLD1
chr14	101166207	101184284	LuminaB,LuminaA	4.11	-17956	DLK1
chr12	95036564	95039762	Normal,TNBC-ClaudinLow	4.11	6175	TMCC3
chr1	51728545	51736087	Normal,TNBC-ClaudinLow	4.11	30372	RNF11
chr12	127768157	127771716	Normal	4.1	54681	LOC101927616
chr1	27219748	27222713	Normal	4.1	-4361	GPN2
chr11	2142602	2145170	Normal	4.09	11553	MIR483
chr9	89720118	89726309	Normal,TNBC-Basal	4.08	-23073	LOC494127
chr5	58374473	58377270	TNBC-ClaudinLow	4.08	-40532	PDE4D
chr5	144739594	144744705	Normal,TNBC-ClaudinLow	4.08	472783	PRELID2
chr11	68088275	68115854	LuminaB,LuminaA,TNBC-Basal,HER2	4.08	21988	LRP5
chr8	121001989	121003765	HER2	4.07	116983	DEPTOR
chr4	106135364	106138484	Normal	4.07	69083	TET2
chr3	98495692	98499914	Normal,TNBC-ClaudinLow	4.07	46256	ST3GAL6
chr21	37998408	38000443	Normal	4.07	-50558	CLDN14
chr2	204536905	204541722	Normal	4.07	-31884	CD28
chr18	61011951	61015617	Normal	4.07	20722	KDSR
chr7	154999919	155002125	TNBC-ClaudinLow	4.06	-88463	INSIG1
chr6	79201204	79203640	Normal	4.06	-374838	IRAK1BP1
chr5	170196880	170201848	TNBC-Basal	4.06	-11358	GABRP
chr4	70572424	70575768	Normal	4.06	52334	SULT1B1
chr20	31562953	31568365	LuminaB	4.06	26580	SUN5
chr2	102312472	102324151	Normal,LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow	4.06	3774	MAP4K4
chr18	43838954	43845417	Normal	4.06	-72001	RNF165
chr10	81092618	81096824	TNBC-ClaudinLow	4.06	-12498	PPIF
chr1	78557014	78564618	Normal,TNBC-ClaudinLow	4.05	49228	GIPC2
chr7	116291378	116295264	Normal	4.04	-19137	MET
chr4	162474495	162478406	Normal	4.04	-467434	LOC101928052
chr19	13891319	13901749	Normal,TNBC-Basal	4.04	-9739	ZSWIM4
chr8	70058360	70061965	Normal	4.03	-43737	LOC100505718
chr12	47300717	47304653	Normal	4.03	-82905	SLC38A4
chr11	65448173	65449945	TNBC-ClaudinLow	4.03	-18616	RELA
chr9	6550485	6556667	Normal	4.02	92116	GLDC
chr4	35021769	35024468	TNBC-ClaudinLow	4.02	-981603	LOC101928622
chr4	28312623	28320036	LuminaB,LuminaA	4.02	-504874	MIR4275
chr21	39219789	39225050	Normal,TNBC-ClaudinLow	4.02	66322	KCNJ6
chr20	60094938	60098295	TNBC-ClaudinLow	4.02	22140	CDH4
chr2	159576564	159603427	LuminaB,LuminaA,HER2	4.02	-61833	DAPL1
chr11	14438842	14447130	Normal,TNBC-ClaudinLow	4.02	-56934	RRAS2
chr8	32557687	32562619	Normal	4.01	-19197	NRG1
chr6	31716809	31721651	TNBC-ClaudinLow	4.01	11506	MSH5
chr3	153010450	153012428	Normal	4.01	131439	RAP2B
chr17	37022765	37047978	LuminaB	4.01	9260	LASP1
chr10	75419443	75422967	TNBC-ClaudinLow	4	-5342	SYNPO2L
chr1	198226275	198229985	Normal	4	102023	NEK7
chr1	162214611	162223051	TNBC-Basal	4	91935	MIR4654
chr1	225440413	225443793	Normal	3.99	173712	LBR
chr1	19977382	19979537	Normal	3.99	4356	NBL1
chr6	148850972	148853076	TNBC-ClaudinLow	3.98	188296	SASH1
chr4	86663422	86667283	Normal	3.98	21732	MIR4451
chr20	50647082	50649892	TNBC-ClaudinLow	3.98	160037	ZFP64
chr15	48984865	48990858	Normal	3.98	-49876	FBN1
chr13	41718451	41720776	Normal	3.98	12550	LOC101929140
chr9	630158	633147	Normal	3.97	-75153	KANK1
chr15	86129799	86134291	Normal	3.97	-31135	AKAP13
chr14	67396863	67402270	Normal,LuminaB,LuminaA,HER2	3.97	-256543	FAM71D
chr11	11993731	12021796	Normal,TNBC-ClaudinLow	3.97	22423	DKK3
chr9	129231868	129238457	Normal,TNBC-ClaudinLow	3.96	-62379	NRON
chr5	93574543	93578531	Normal	3.96	-129133	FAM172A
chr17	70097413	70104775	TNBC-Basal	3.96	11063	SOX9-AS1
chr15	58310743	58313106	Normal	3.96	-5629	ALDH1A2
chr13	45811768	45817607	Normal	3.96	-39512	KCTD4
chr13	43554441	43557511	Normal	3.96	10431	EPSTI1
chr1	241269900	241279286	TNBC-Basal,HER2	3.96	-20978	MIR3123
chrX	100703278	100709234	LuminaB,LuminaA	3.95	33006	ARMCX4
chr5	78202165	78204848	TNBC-ClaudinLow	3.95	78260	ARSB
chr18	67703468	67706949	Normal	3.95	-80976	CD226
chr10	124121197	124125266	Normal	3.95	-10862	PLEKHA1
chr2	169463514	169466936	Normal	3.94	25773	MIR4774
chr15	32973631	32982097	Normal,TNBC-ClaudinLow	3.94	-32340	GREM1
chr12	69307218	69310336	Normal	3.94	18202	CPM
chr12	46793976	46799647	Normal	3.94	18922	LOC100288798
chr11	23746127	23749595	TNBC-ClaudinLow	3.94	-307125	MIR8054
chr7	117714497	117722529	Normal	3.93	-105572	LSM8
chr21	32665079	32667834	Normal,TNBC-ClaudinLow	3.93	-255661	KRTAP19-8
chr13	84514578	84517270	Normal	3.93	-59396	SLITRK1
chr11	33031914	33034627	Normal	3.93	-4139	DEPDC7
chr10	37447040	37452130	LuminaB	3.93	34801	ANKRD30A
chr9	139508032	139511363	TNBC-ClaudinLow	3.92	-43610	EGFL7
chr7	113291285	113293789	Normal	3.92	266545	PPP1R3A
chr21	35339964	35342611	Normal,TNBC-ClaudinLow	3.92	20058	LOC400863
chr2	64014835	64021286	Normal,TNBC-ClaudinLow	3.92	-50037	UGP2
chr19	43581281	43584080	TNBC-ClaudinLow	3.92	4213	PSG2
chr18	66093828	66100027	Normal,TNBC-ClaudinLow	3.92	285426	TMX3
chr11	5384564	5387189	TNBC-ClaudinLow	3.92	13139	OR51B6
chr7	126338449	126343950	Normal,TNBC-ClaudinLow	3.91	357039	MIR592
chr6	45663529	45668694	Normal,TNBC-ClaudinLow	3.91	239223	CLIC5
chr5	49688758	49691497	Normal	3.91	47107	EMB
chr21	32872443	32876814	TNBC-Basal,HER2	3.91	56662	TIAM1
chr17	46592650	46612326	LuminaB,LuminaA,HER2	3.91	5784	HOXB1
chr10	95521243	95524561	LuminaB	3.91	5337	LGI1
chr9	136987218	136989231	TNBC-ClaudinLow	3.9	-12985	WDR5
chr4	57802242	57805194	Normal,TNBC-ClaudinLow	3.9	28640	REST
chr3	12547239	12552115	Normal,TNBC-ClaudinLow	3.9	23668	TSEN2
chr2	237194850	237196990	TNBC-ClaudinLow	3.9	-22932	ASB18
chr10	8896380	8905857	LuminaA	3.9	-416457	LINC00709
chr1	217698115	217703012	Normal	3.9	103881	GPATCH2
chrX	56138860	56142535	TNBC-Basal,HER2	3.89	-118124	KLF8
chr8	13262293	13266009	Normal,TNBC-ClaudinLow	3.89	108278	DLC1
chr17	44139068	44142498	Normal	3.89	64168	STH
chr17	43047142	43051923	Normal,TNBC-ClaudinLow	3.89	-3888	C1QL1
chr11	95776957	95781365	TNBC-Basal	3.89	-121790	MTMR2
chr9	78794816	78797570	HER2	3.88	213251	RFK
chr2	100808230	100811710	TNBC-ClaudinLow	3.88	-14745	LINC01104
chr18	43379985	43388306	Normal,LuminaB,LuminaA,TNBC-ClaudinLow,HER2	3.88	-21399	SIGLEC15
chr13	25424351	25427315	Normal	3.88	71194	CENPJ
chr13	104966003	104969759	Normal,TNBC-ClaudinLow	3.88	890332	LINC01309
chr4	123620499	123623047	Normal	3.87	31840	CETN4P
chr10	116537970	116541360	TNBC-ClaudinLow	3.87	15119	LOC101927692
chr3	190523906	190526867	Normal	3.86	55079	GMNC
chr2	11630489	11657638	LuminaB,LuminaA	3.86	-30178	GREB1
chr7	943553	945635	TNBC-ClaudinLow	3.85	15932	ADAP1
chr19	17669792	17672726	Normal,TNBC-ClaudinLow	3.85	4749	COLGALT1
chr8	141712507	141717269	Normal,TNBC-Basal	3.84	-69242	AGO2
chr7	132736632	132740137	TNBC-ClaudinLow	3.84	28444	CHCHD3
chr2	239862664	239872565	Normal,TNBC-ClaudinLow	3.84	-19649	FLJ43879
chr2	204664413	204680969	Normal,TNBC-ClaudinLow	3.84	-59819	CTLA4
chr10	120889509	120892464	TNBC-ClaudinLow	3.84	27358	FAM45B
chr5	136525041	136529793	Normal	3.83	307601	SPOCK1
chr4	144207323	144209255	Normal	3.83	-49693	GAB1
chr2	194656881	194659872	Normal	3.83	-550616	LOC101927406
chr2	142942221	142945122	Normal,TNBC-ClaudinLow	3.83	-54401	LRP1B
chr12	79279748	79282016	Normal,TNBC-ClaudinLow	3.83	22434	SYT1
chr12	116579040	116583308	Normal,TNBC-ClaudinLow	3.83	5285	MIR620
chr10	97093234	97095618	Normal,TNBC-ClaudinLow	3.83	-43521	PDLIM1
chr10	59450981	59453255	Normal,TNBC-ClaudinLow	3.83	-387799	MIR3924
chr1	3249298	3256428	LuminaB	3.83	-118283	ARHGEF16
chr7	107609832	107620535	Normal	3.82	28621	LAMB1
chr3	57901136	57906562	Normal	3.82	-90277	FLNB
chr3	168807542	168810124	Normal	3.82	55260	MECOM
chr15	82413133	82416713	Normal	3.82	33989	LOC101929690
chr10	37480567	37489278	LuminaB	3.82	70138	ANKRD30A
chr1	202021512	202034432	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	3.82	48283	ELF3
chr1	172122133	172125827	Normal,TNBC-ClaudinLow	3.82	-10005	DNM3OS
chr8	39909233	39920552	LuminaB,TNBC-Basal,HER2	3.81	-96094	C8orf4
chr7	121220474	121226129	HER2	3.81	-186879	FAM3C
chr5	67191283	67194941	Normal	3.81	-292591	LOC102467655
chr2	6341280	6345401	TNBC-Basal,HER2	3.81	172214	LINC01247
chr2	44972354	44976300	TNBC-Basal,HER2	3.81	194319	SIX3-AS1
chr14	44246105	44252608	LuminaB,LuminaA	3.81	727143	FSCB
chr10	60564742	60568899	Normal	3.81	92046	FAM133CP
chr9	111432741	111436939	Normal	3.8	183435	ACTL7B
chr6	160720618	160722248	Normal	3.8	-41470	SLC22A2
chr4	168823050	168826240	Normal	3.8	-189042	ANXA10
chr3	185813242	185818520	TNBC-Basal	3.8	11020	ETV5
chr2	213982497	213985956	Normal	3.8	30832	IKZF2
chr14	75700169	75702346	Normal,TNBC-ClaudinLow	3.8	-44223	FOS
chr4	91237601	91241090	Normal	3.79	83164	CCSER1
chr2	19181461	19188014	LuminaB	3.79	-363452	MIR4757
chr18	61105627	61108629	Normal	3.79	-17376	VPS4B
chr11	44728652	44733501	TNBC-ClaudinLow	3.79	-54899	TSPAN18
chrX	41096659	41099180	TNBC-ClaudinLow	3.78	-94641	DDX3X
chr9	117437818	117442503	Normal,TNBC-ClaudinLow	3.78	4209	LOC100505478
chr8	104265930	104270393	Normal	3.78	-42499	FZD6
chr5	39500186	39503704	TNBC-ClaudinLow	3.78	-18587	LOC101926940
chr4	147142714	147144839	TNBC-ClaudinLow	3.78	46942	LSM6
chr21	41688754	41700782	LuminaB,LuminaA	3.78	-60241	DSCAM-AS1
chr2	102417721	102424420	Normal,TNBC-Basal,TNBC-ClaudinLow	3.78	106533	MAP4K4
chr18	61453929	61457531	Normal,TNBC-ClaudinLow	3.78	10720	SERPINB7
chr14	52371251	52374632	Normal,TNBC-ClaudinLow	3.78	12348	LOC102723604
chr10	28365483	28368495	Normal	3.78	-79005	ARMC4
chr8	59010337	59011956	TNBC-ClaudinLow	3.77	104034	FAM110B
chr6	118706829	118711436	Normal,TNBC-ClaudinLow	3.77	-113403	BRD7P3
chr5	154907938	154914473	Normal	3.77	517946	KIF4B
chr3	4563731	4579954	LuminaB,LuminaA,HER2	3.77	36811	ITPR1
chr19	11151410	11154264	TNBC-Basal	3.77	-47200	LDLR
chr18	51659307	51661839	Normal	3.77	88209	SNORA37
chr16	75221908	75224734	LuminaB,LuminaA,TNBC-Basal,HER2	3.77	17751	CTRB2
chr9	110545658	110548092	TNBC-ClaudinLow	3.76	-294828	KLF4
chr7	137263427	137266268	Normal,TNBC-ClaudinLow	3.76	-236301	PTN
chr4	160209279	160214450	Normal	3.76	22867	RAPGEF2
chr3	179397172	179401435	TNBC-Basal	3.76	28371	USP13
chr12	9497585	9504803	Normal	3.76	-18865	LOC101930452
chr5	133066723	133075925	Normal	3.75	-123101	FSTL4
chr3	111327162	111331013	Normal	3.75	-14905	ZBED2
chr3	101724208	101727402	Normal	3.75	66103	LOC152225
chr2	223813866	223817291	Normal	3.75	89847	ACSL3
chr13	42182991	42190189	Normal,TNBC-Basal	3.75	-44059	MIR5006
chr1	178432576	178435845	Normal	3.75	-48001	TEX35
chr5	97789501	97792101	Normal,TNBC-ClaudinLow	3.74	-314197	RGMB
chr5	136727633	136732533	Normal	3.74	104935	SPOCK1
chr4	78091762	78094993	Normal	3.74	15021	CCNG2
chr18	36519258	36522356	TNBC-ClaudinLow	3.74	-735877	MIR5583-1
chr13	73821728	73824495	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	3.74	190182	KLF5
chr1	39668526	39672564	Normal,TNBC-ClaudinLow	3.74	120707	MACF1
chr5	90372607	90376365	Normal	3.73	235733	LUCAT1
chr20	20467099	20470922	Normal	3.73	120246	INSM1
chr17	36998894	37013079	LuminaB	3.73	3262	SNORA21
chr12	5565179	5567239	TNBC-ClaudinLow	3.73	24930	NTF3
chr1	198056777	198059180	Normal	3.73	-68129	NEK7
chr5	32520172	32524118	TNBC-ClaudinLow	3.72	-63459	SUB1
chr14	85981818	85984816	Normal,TNBC-ClaudinLow	3.72	-13170	FLRT2
chr7	40475350	40479007	Normal,TNBC-ClaudinLow	3.71	302604	SUGCT
chr17	47336642	47339121	Normal,LuminaB,LuminaA,TNBC-ClaudinLow	3.71	12277	FLJ40194
chr12	27697988	27711378	Normal,TNBC-Basal,TNBC-ClaudinLow	3.71	27639	PPFIBP1
chr9	78588149	78590568	TNBC-Basal	3.7	83799	PCSK5
chr9	135505087	135509306	Normal	3.7	-38531	GTF3C4
chr5	137838998	137842277	Normal	3.7	36763	ETF1
chr21	39962752	39966406	LuminaB	3.7	-7710	ERG
chr14	40688267	40693114	LuminaB,LuminaA	3.7	-733225	LOC644919
chr6	158836851	158840240	Normal	3.69	104854	TULP4
chr4	187542242	187547299	Normal,TNBC-ClaudinLow	3.69	-68233	MTNR1A
chr20	2216595	2219003	Normal	3.69	30226	LOC388780
chrX	47814520	47818728	LuminaB	3.68	46753	ZNF182
chrX	38170202	38173556	Normal,TNBC-ClaudinLow	3.68	14909	RPGR
chr3	104992422	104995671	Normal	3.68	-91510	ALCAM
chr2	20713120	20717464	Normal,TNBC-ClaudinLow	3.68	68458	RHOB
chr11	128335603	128340250	Normal,TNBC-Basal,TNBC-ClaudinLow	3.68	54279	ETS1
chr8	61923884	61928922	TNBC-ClaudinLow	3.67	-46096	LOC100130298
chr7	126213220	126216012	Normal,TNBC-Basal,TNBC-ClaudinLow	3.67	483622	MIR592
chr4	26590541	26593364	Normal	3.67	6407	TBC1D19
chr3	159537376	159544782	Normal	3.67	-16570	SCHIP1
chr2	112620188	112622008	TNBC-ClaudinLow	3.67	20643	ANAPC1
chr15	51316238	51318800	Normal	3.67	79954	TNFAIP8L3
chr1	96951959	96954635	Normal,TNBC-Basal	3.67	-113616	LOC101928241
chr9	89808046	89813775	Normal	3.66	47352	C9orf170
chr8	121215926	121218268	HER2	3.66	79751	COL14A1
chr8	117569648	117576124	HER2	3.66	195176	EIF3H
chr7	130478635	130480545	Normal	3.66	-60730	KLF14
chr14	28983831	28986240	Normal,TNBC-ClaudinLow	3.66	249490	FOXG1-AS1
chr12	92209913	92215341	Normal	3.66	322862	C12orf79
chr12	8308191	8311615	Normal,TNBC-ClaudinLow	3.66	-15246	ZNF705A
chr8	13430803	13434047	Normal	3.65	8074	C8orf48
chr7	75252441	75254566	TNBC-ClaudinLow	3.65	-96050	PMS2P3
chr3	18335322	18338022	Normal,TNBC-Basal	3.65	130157	SATB1
chr19	21768828	21770114	LuminaB	3.65	81035	ZNF429
chr4	21657063	21660626	Normal,TNBC-ClaudinLow	3.64	40474	KCNIP4
chr2	122236290	122249206	Normal	3.64	-45707	RNU4ATAC
chr19	16461588	16463408	TNBC-ClaudinLow	3.64	26848	KLF2
chr8	34850651	34853512	Normal	3.63	210643	LINC01288
chr4	48914250	48916648	Normal,TNBC-ClaudinLow	3.63	-6604	OCIAD2
chr2	1711005	1714365	Normal,TNBC-Basal	3.63	35634	PXDN
chr18	25642433	25647051	Normal	3.63	112703	CDH2
chr18	18631179	18635446	Normal	3.63	58500	ROCK1
chr11	47254170	47262033	TNBC-ClaudinLow	3.63	-11749	NR1H3
chr10	48554225	48557391	Normal	3.63	-116670	GDF10
chr9	114718486	114730382	Normal,TNBC-ClaudinLow	3.62	30055	MIR4668
chr19	16544993	16548474	TNBC-ClaudinLow	3.62	36090	EPS15L1
chr18	72705556	72708653	Normal,TNBC-ClaudinLow	3.62	214177	ZADH2
chr10	9100019	9119337	LuminaB,LuminaA	3.62	-207897	LINC00709
chr10	56902364	56906829	TNBC-ClaudinLow	3.62	-343545	PCDH15
chr7	36722184	36727653	Normal	3.61	39236	AOAH
chr7	1999981	2002898	TNBC-ClaudinLow	3.61	-117550	MIR4655
chr3	98958332	98962017	Normal	3.61	-339641	DCBLD2
chr17	36851172	36915201	LuminaB	3.61	-3323	CISD3
chr17	2115340	2120155	TNBC-ClaudinLow	3.61	-18224	LOC101927839
chr15	56496481	56498740	Normal	3.61	37873	RFX7
chr11	111501238	111507860	Normal	3.61	31380	SIK2
chr10	70353381	70355479	Normal,TNBC-ClaudinLow	3.61	34314	TET1
chr6	121629619	121632804	Normal	3.6	24435	TBC1D32
chr6	106698727	106707127	Normal	3.6	61214	ATG5
chr3	87484984	87488145	Normal	3.6	-160827	POU1F1
chr3	140007044	140012978	HER2	3.6	217620	CLSTN2-AS1
chr2	39636434	39640792	Normal,TNBC-ClaudinLow	3.6	25840	MAP4K3
chr18	33900591	33903161	Normal,TNBC-ClaudinLow	3.6	24218	FHOD3
chr1	35752222	35755889	Normal	3.6	19488	ZMYM4
chrX	9810573	9817529	Normal,TNBC-ClaudinLow	3.59	59556	SHROOM2
chr8	94111119	94119535	LuminaB,LuminaA	3.59	63752	C8orf87
chr8	129872749	129874940	Normal	3.59	-296919	LINC00824
chr6	130019946	130027721	Normal,TNBC-ClaudinLow	3.59	7537	ARHGAP18
chr2	71869301	71874489	LuminaB,HER2	3.59	178064	DYSF
chr12	132279167	132282484	LuminaB	3.59	-32115	MMP17
chr10	72055111	72057663	Normal,TNBC-ClaudinLow	3.59	-12937	NPFFR1
chr4	61350203	61354153	TNBC-ClaudinLow	3.58	0	none
chr3	32447233	32450359	Normal	3.58	15634	CMTM7
chr3	100751894	100759976	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	3.58	-43601	ABI3BP
chr2	64924319	64928163	Normal,TNBC-ClaudinLow	3.58	-45195	SERTAD2
chr2	131084731	131087603	Normal	3.58	13789	CCDC115
chr12	90626840	90630438	Normal	3.58	525908	LINC00936
chr12	18448643	18450737	Normal	3.58	35217	PIK3C2G
chr11	130901047	130905337	Normal,TNBC-ClaudinLow	3.58	-116810	SNX19
chr10	78087058	78091296	Normal	3.58	546659	C10orf11
chr10	23199417	23203666	LuminaB	3.58	-15411	ARMC3
chr10	111651337	111657000	Normal	3.58	29143	XPNPEP1
chr7	79408048	79409468	TNBC-ClaudinLow	3.57	8187	MIR548M
chr6	161500164	161502396	Normal	3.57	81734	AGPAT4-IT1
chr13	40136731	40142409	Normal,TNBC-Basal,TNBC-ClaudinLow	3.57	37786	LHFP
chr9	124159335	124162875	Normal	3.56	-28523	STOM
chr8	11271238	11276517	TNBC-ClaudinLow	3.56	47967	FAM167A-AS1
chr8	104195659	104199765	Normal	3.56	-13344	BAALC-AS1
chr5	43771430	43775742	Normal,TNBC-Basal,TNBC-ClaudinLow	3.56	-170254	NNT-AS1
chr2	216458466	216461460	Normal	3.56	141534	LOC102724849
chr19	17243586	17251621	Normal,LuminaB,TNBC-Basal,TNBC-ClaudinLow,HER2	3.56	61013	MYO9B
chr14	85934253	85939661	Normal	3.56	-59530	FLRT2
chr11	102723393	102725931	Normal	3.56	-10320	MMP3
chr10	36757361	36759283	Normal	3.56	-656462	ANKRD30A
chr10	19939767	19950068	Normal,TNBC-ClaudinLow	3.56	72562	LOC101928834
chr8	119342816	119346923	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	3.55	-220811	EXT1
chr7	81245175	81249119	Normal,TNBC-ClaudinLow	3.55	8385	LOC100128317
chr6	85352515	85357749	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	3.55	-44043	LOC102724201
chr6	125443418	125446964	Normal,TNBC-Basal,TNBC-ClaudinLow	3.55	-29683	TPD52L1
chr6	125297465	125299609	Normal	3.55	-5972	RNF217
chr4	7853227	7856046	TNBC-ClaudinLow	3.55	87017	AFAP1
chr4	170888596	170893771	Normal	3.55	5870	LOC100506085
chr4	125960880	125968002	Normal	3.55	-273125	FAT4
chr12	106919953	106922240	TNBC-ClaudinLow	3.55	-55588	RFX4
chr1	6923028	6925967	Normal	3.55	79114	CAMTA1
chr1	205225172	205233223	Normal,TNBC-ClaudinLow	3.55	3869	TMCC2
chr9	135423521	135426130	TNBC-ClaudinLow	3.54	-33167	BARHL1
chr8	2214662	2217222	TNBC-ClaudinLow	3.54	191274	MIR7160
chr8	16948253	16950022	TNBC-ClaudinLow	3.54	64391	MICU3
chr7	81733916	81735900	TNBC-ClaudinLow	3.54	96416	LOC101927356
chr6	109621841	109627763	LuminaB	3.54	9297	CCDC162P
chr4	77308780	77310870	Normal	3.54	18633	CCDC158
chr4	66373103	66375371	Normal,TNBC-ClaudinLow	3.54	-161441	EPHA5-AS1
chr2	14328693	14333167	Normal	3.54	210152	LINC00276
chr16	85512854	85515640	LuminaB	3.54	-130781	GSE1
chr10	70564214	70566837	TNBC-ClaudinLow	3.54	-21768	STOX1
chr10	529840	531920	TNBC-ClaudinLow	3.54	156838	MIR5699
chrX	37173817	37178444	TNBC-Basal,HER2	3.53	-32397	PRRG1
chr6	158907323	158910815	Normal,TNBC-ClaudinLow	3.53	-48398	TMEM181
chr4	1160402	1162484	LuminaB,LuminaA,TNBC-ClaudinLow	3.53	5214	SPON2
chr2	15498485	15504806	Normal,TNBC-ClaudinLow	3.53	199827	NBAS
chr19	44065787	44068788	TNBC-ClaudinLow	3.53	12443	XRCC1
chr17	1520327	1522079	TNBC-ClaudinLow	3.53	10466	SLC43A2
chr12	20984905	20986314	TNBC-Basal	3.53	21972	SLCO1B3
chr10	92243238	92245678	Normal	3.53	56104	LOC101926942
chrX	154194771	154197246	TNBC-ClaudinLow	3.52	54990	F8
chr9	91548537	91559453	LuminaB,LuminaA,HER2	3.52	-51782	C9orf47
chr8	56979659	56981163	TNBC-ClaudinLow	3.52	6049	SNORD54
chr6	167716970	167721899	TNBC-ClaudinLow	3.52	14632	UNC93A
chr3	32953681	32957578	Normal	3.52	-37436	CCR4
chr3	121448705	121451775	Normal	3.52	18374	GOLGB1
chr20	6480000	6483587	Normal	3.52	74415	CASC20
chr18	8746549	8748886	Normal	3.52	30349	MTCL1
chr17	26360042	26362532	Normal,TNBC-ClaudinLow	3.52	-8400	NLK
chr12	114505219	114509328	LuminaB,HER2	3.52	-103097	RBM19
chr10	80261167	80263228	TNBC-ClaudinLow	3.52	235113	LINC00595
chr1	162125127	162141898	LuminaB,LuminaA	3.52	6616	MIR4654
chr7	78910439	78914462	Normal,TNBC-ClaudinLow	3.51	-169822	MAGI2-AS3
chr5	142578727	142582225	Normal	3.51	202778	NR3C1
chr4	54773985	54776158	Normal,TNBC-ClaudinLow	3.51	78378	RPL21P44
chr4	3436536	3444282	Normal,LuminaB,LuminaA	3.51	-3250	HGFAC
chr4	24138212	24142460	LuminaB	3.51	-248636	PPARGC1A
chr1	44549750	44552122	TNBC-ClaudinLow	3.51	-33585	KLF17
chrX	64853848	64857286	TNBC-Basal	3.5	-31943	MSN
chr8	129587659	129590492	Normal	3.5	-12150	LINC00824
chr6	135109660	135113111	LuminaB	3.5	159875	ALDH8A1
chr5	9336153	9340110	Normal	3.5	-173313	CTD-2201E9.1
chr5	74975467	74978046	Normal	3.5	31524	POC5
chr14	21786990	21789680	LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow,HER2	3.5	32200	RPGRIP1
chr11	113232315	113235800	Normal	3.5	-24455	ANKK1
chr8	32420456	32426041	Normal	3.49	17521	NRG1
chr8	20078746	20082081	Normal,TNBC-ClaudinLow	3.49	25710	ATP6V1B2
chr5	171559287	171562039	TNBC-ClaudinLow	3.49	54683	STK10
chr4	104371127	104374098	Normal	3.49	26414	LOC101929448
chr2	214989821	214993973	Normal	3.49	-284563	VWC2L
chr2	147577059	147580900	Normal,TNBC-ClaudinLow	3.49	234355	PABPC1P2
chr16	73005361	73008370	Normal	3.49	75409	ZFHX3
chr15	85871733	85878490	Normal,TNBC-ClaudinLow	3.49	-48735	AKAP13
chr10	104100206	104104939	Normal,TNBC-ClaudinLow	3.49	-51294	NFKB2
chr1	119587667	119590622	Normal	3.49	-56965	TBX15
chrX	46445282	46451145	Normal,TNBC-ClaudinLow	3.48	15092	CHST7
chr9	18541525	18546608	Normal,TNBC-ClaudinLow	3.48	-29237	MIR3152
chr8	17548469	17550755	Normal	3.48	5634	MTUS1
chr6	109543416	109547319	LuminaB	3.48	-12449	LOC100996634
chr4	26523303	26525535	Normal	3.48	-32377	CCKAR
chr22	40987600	40996706	Normal,TNBC-Basal	3.48	40570	MKL1
chr20	14810669	14812673	Normal	3.48	98493	MACROD2-AS1
chr2	169818056	169823847	LuminaB	3.48	63202	G6PC2
chr15	57624517	57627965	TNBC-ClaudinLow	3.48	14906	LINC01413
chr13	43817646	43821245	Normal,TNBC-ClaudinLow	3.48	132145	LINC00400
chr11	113242974	113245346	Normal	3.48	-14352	ANKK1
chr1	111623274	111628189	Normal,TNBC-Basal	3.48	-56517	CEPT1
chrX	12377465	12380226	Normal,TNBC-ClaudinLow	3.47	222261	FRMPD4
chr9	121370631	121372681	Normal,TNBC-ClaudinLow	3.47	760083	BRINP1
chr6	79519065	79522102	Normal	3.47	-56677	IRAK1BP1
chr6	123376851	123379467	Normal	3.47	61044	CLVS2
chr6	101740777	101745917	Normal	3.47	-103513	GRIK2
chr3	122507284	122510169	Normal	3.47	3940	HSPBAP1
chr18	57326220	57331785	Normal	3.47	35642	CCBE1
chr18	473480	476635	TNBC-ClaudinLow	3.47	25672	COLEC12
chr10	101743110	101745546	Normal	3.47	25348	DNMBP
chr9	27496244	27502697	Normal	3.46	-24841	IFNK
chr8	25164772	25167966	TNBC-ClaudinLow	3.46	-36548	MIR6876
chr21	27570991	27573626	Normal	3.46	-28862	APP
chr2	177355043	177357662	Normal	3.46	109428	MIR1246
chr2	120933388	120935866	Normal	3.46	46357	TMEM185B
chr15	93603694	93611922	TNBC-Basal	3.46	8581	RGMA
chr14	55442057	55444868	Normal,TNBC-ClaudinLow	3.46	50357	WDHD1
chr10	116627133	116631148	Normal,TNBC-ClaudinLow	3.46	47638	FAM160B1
chr8	22624243	22627306	LuminaB,LuminaA	3.45	-74959	EGR3
chr6	55760800	55765486	TNBC-ClaudinLow	3.45	-22768	BMP5
chr5	130701706	130704352	Normal	3.45	103328	CDC42SE2
chr3	16112911	16117556	TNBC-ClaudinLow	3.45	-100950	GALNT15
chr13	26035556	26039145	Normal	3.45	91142	ATP8A2
chr12	1638344	1641593	Normal,TNBC-Basal,TNBC-ClaudinLow	3.45	30312	LINC00942
chr9	89108426	89111136	Normal	3.44	-140379	ZCCHC6
chr8	29944994	29946069	TNBC-ClaudinLow	3.44	-4807	SARAF
chr6	3052929	3055336	TNBC-ClaudinLow	3.44	-22925	RIPK1
chr5	142595521	142598351	TNBC-ClaudinLow	3.44	186318	NR3C1
chr4	165123394	165127827	Normal,TNBC-Basal,TNBC-ClaudinLow	3.44	-6747	ANP32C
chr3	58256904	58259389	Normal,TNBC-ClaudinLow	3.44	-33825	RPP14
chr17	37248295	37249759	LuminaB	3.44	35756	LOC100131347
chr15	38688572	38692597	Normal,TNBC-ClaudinLow	3.44	-55743	FAM98B
chr14	52027242	52034508	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	3.44	35795	FRMD6-AS2
chr13	70959557	70968001	LuminaB	3.44	-281154	KLHL1
chr11	75075895	75088158	LuminaB,LuminaA,HER2	3.44	-19151	ARRB1
chr1	85985638	85995285	Normal	3.44	53585	DDAH1
chr8	24859357	24862452	Normal	3.43	-46521	NEFL
chr4	103583145	103588324	Normal	3.43	96417	MANBA
chr3	31916753	31919790	Normal,TNBC-Basal	3.43	-104994	ZNF860
chr2	163780789	163786010	Normal	3.43	-88142	KCNH7
chr19	47262461	47266983	Normal	3.43	-15002	STRN4
chr18	59563139	59565190	Normal	3.43	-3860	RNF152
chr15	95705177	95707537	Normal	3.43	163972	LINC01197
chr11	85393140	85394612	TNBC-ClaudinLow	3.43	3444	CCDC89
chr11	36440313	36445155	Normal	3.43	20188	PRR5L
chr10	55378681	55380738	Normal	3.43	-848249	MBL2
chr10	127886413	127889176	TNBC-ClaudinLow	3.43	189333	ADAM12
chr1	14868520	14871337	TNBC-ClaudinLow	3.43	-55284	KAZN
chr6	134094513	134096831	Normal,TNBC-ClaudinLow	3.42	-46612	LINC01312
chr3	70849803	70857581	LuminaB,LuminaA	3.42	260382	FOXP1
chr16	23133423	23137698	Normal	3.42	25031	USP31
chr10	64718035	64721618	TNBC-ClaudinLow	3.42	-140899	EGR2
chr1	171870562	171872422	Normal	3.42	60875	DNM3
chr8	27137274	27141954	Normal	3.41	-23658	STMN4
chr5	57154134	57161143	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	3.41	37351	LOC101928539
chr4	48361669	48364210	Normal	3.41	19327	SLAIN2
chr4	162634028	162636701	Normal	3.41	-308520	LOC101928052
chr21	36761470	36763911	Normal	3.41	190372	LOC100506403
chr17	70603930	70608161	Normal,TNBC-Basal	3.41	-17102	LINC00673
chr6	679399	683563	Normal,TNBC-ClaudinLow	3.4	11660	EXOC2
chr4	38132978	38134771	Normal	3.4	12300	TBC1D1
chr21	37293716	37298667	Normal,TNBC-ClaudinLow	3.4	80774	LOC101928269
chr21	17145741	17152219	Normal	3.4	46637	USP25
chr2	223888310	223894244	LuminaB,LuminaA	3.4	-25370	KCNE4
chr18	52634162	52637278	Normal,TNBC-ClaudinLow	3.4	-8981	CCDC68
chr17	67602141	67606474	Normal,LuminaA	3.4	14180	LINC01483
chr12	76692422	76695240	TNBC-ClaudinLow	3.4	48391	BBS10
chr12	23126473	23133556	Normal,TNBC-ClaudinLow	3.4	-198555	LOC101928441
chr1	230086842	230090014	Normal	3.4	-105107	GALNT2
chr7	55016317	55234539	Normal,TNBC-Basal,TNBC-ClaudinLow	3.39	38704	EGFR
chr7	225779	227616	TNBC-ClaudinLow	3.39	33729	FAM20C
chr4	40362916	40368409	LuminaB,LuminaA,HER2	3.39	28317	CHRNA9
chr4	167355068	167358087	Normal,TNBC-ClaudinLow	3.39	562168	TLL1
chr4	10180659	10188775	TNBC-ClaudinLow	3.39	-66144	WDR1
chr2	43742451	43749998	Normal,TNBC-Basal	3.39	76889	THADA
chr2	235581749	235590518	Normal,TNBC-ClaudinLow	3.39	-180436	ARL4C
chr2	128370914	128375088	Normal,HER2	3.39	-30437	GPR17
chr16	80639637	80658766	LuminaB,LuminaA,TNBC-ClaudinLow,HER2	3.39	-42496	LINC01227
chr15	63060815	63063636	Normal,TNBC-ClaudinLow	3.39	-53930	MIR190A
chr14	72922625	72926726	TNBC-ClaudinLow	3.39	-58852	MIR7843
chr8	32428304	32431055	Normal	3.38	-23664	NRG1
chr8	23151940	23157022	Normal,TNBC-ClaudinLow	3.38	8877	R3HCC1
chr5	60606640	60612309	Normal,TNBC-ClaudinLow	3.38	-18625	ZSWIM6
chr5	17355152	17357436	TNBC-ClaudinLow	3.38	31125	LOC401177
chr5	157808125	157814280	Normal,TNBC-ClaudinLow	3.38	25579	LOC101927697
chr4	160216100	160221840	Normal	3.38	29973	RAPGEF2
chr22	42855663	42859473	LuminaB	3.38	-29167	NFAM1
chr20	15023135	15027285	Normal,HER2	3.38	-115046	MACROD2-AS1
chr17	72187722	72192303	LuminaB,LuminaA,HER2	3.38	-9782	RPL38
chr16	80306629	80309789	Normal	3.38	-266644	DYNLRB2
chr11	104207233	104210396	Normal	3.38	-173787	PDGFD
chr1	49811225	49814393	HER2	3.38	89727	LOC101929721
chrX	64815085	64817454	Normal,TNBC-Basal,TNBC-ClaudinLow	3.37	-43968	FRMD8P1
chrX	11903648	11907919	Normal	3.37	128049	MSL3
chrX	102696218	102699044	Normal	3.37	65523	NGFRAP1
chr8	103625682	103631239	LuminaB,LuminaA,TNBC-Basal,HER2	3.37	37732	KLF10
chr6	152081021	152087842	Normal,LuminaB,LuminaA	3.37	-42376	ESR1
chr3	29293148	29295749	Normal	3.37	27982	RBMS3-AS3
chr20	51393603	51404617	HER2	3.37	161734	LINC01524
chr20	23249763	23251772	TNBC-ClaudinLow	3.37	-80605	NXT1
chr17	81120608	81124530	LuminaB,LuminaA	3.37	-52096	FLJ43681
chrX	16756007	16759960	LuminaB,LuminaA	3.36	20277	SYAP1
chr9	72511898	72516335	Normal,TNBC-Basal,TNBC-ClaudinLow	3.36	78386	C9orf135
chr5	138204929	138208311	Normal	3.36	-4298	CTNNA1
chr4	32173008	32177926	Normal	3.36	176467	LOC102723828
chr3	53032026	53034446	Normal,TNBC-Basal	3.36	46853	SFMBT1
chr18	53316833	53319831	Normal	3.36	-15108	TCF4
chr12	89584648	89587790	LuminaB,HER2	3.36	160417	DUSP6
chr11	82688610	82693144	Normal,TNBC-ClaudinLow	3.36	54734	RAB30
chr3	41548591	41550752	Normal	3.35	308730	CTNNB1
chr2	11232345	11274669	LuminaB	3.35	18795	FLJ33534
chr17	30863012	30865478	TNBC-ClaudinLow	3.35	50141	CDK5R1
chr15	57357971	57361026	Normal	3.35	148666	TCF12
chr1	8599348	8602456	Normal	3.35	116198	LOC102724552
chr1	28388554	28394883	Normal,TNBC-ClaudinLow	3.35	23430	EYA3
chr1	165862966	165874646	Normal,TNBC-ClaudinLow	3.35	-8351	MIR3658
chr6	169445764	169448118	Normal	3.34	135894	LOC101929504
chr5	126272857	126275406	TNBC-ClaudinLow	3.34	92369	MARCH3
chr3	63952178	63968184	Normal,TNBC-ClaudinLow	3.34	6762	ATXN7
chr3	159568895	159574819	Normal,TNBC-Basal,TNBC-ClaudinLow	3.34	14208	SCHIP1
chr13	36905889	36908490	Normal,TNBC-ClaudinLow	3.34	-13378	SPG20-AS1
chr1	18805164	18817791	LuminaB,LuminaA,HER2	3.34	4054	KLHDC7A
chr1	156229743	156235930	Normal	3.34	-14928	PAQR6
chr4	181747772	181750093	Normal	3.33	331370	LINC00290
chr3	33432547	33436641	Normal	3.33	47276	UBP1
chr19	8149953	8151956	TNBC-ClaudinLow	3.33	33309	CCL25
chr18	59268460	59275904	Normal,TNBC-ClaudinLow	3.33	114408	CDH20
chr17	26762838	26765029	TNBC-ClaudinLow	3.33	-30703	SLC46A1
chr14	29704717	29708047	TNBC-ClaudinLow	3.33	464473	LINC01551
chr14	105239445	105242723	LuminaB,LuminaA	3.33	18854	AKT1
chr1	191096036	191127626	LuminaB,LuminaA	3.33	517812	LOC440704
chr8	118904176	118935810	Normal,HER2	3.32	204065	EXT1
chr7	22599174	22631029	Normal,TNBC-Basal,TNBC-ClaudinLow	3.32	12146	LOC100506178
chr6	143606324	143609072	Normal	3.32	156116	ADAT2
chr4	20839872	20843628	Normal,TNBC-Basal,TNBC-ClaudinLow	3.32	10541	KCNIP4
chr4	177840168	177844652	Normal,TNBC-ClaudinLow	3.32	-128511	VEGFC
chr4	162682626	162685146	Normal	3.32	-259998	LOC101928052
chr3	122368961	122371916	LuminaB,LuminaA	3.32	-29233	PARP14
chr2	229405367	229414158	Normal,TNBC-ClaudinLow	3.32	-363401	SPHKAP
chr18	33931280	33936730	Normal,TNBC-ClaudinLow	3.32	56347	FHOD3
chr12	66112683	66115295	Normal	3.32	-77837	LOC100507065
chr12	116988939	116991173	TNBC-ClaudinLow	3.32	-7129	MAP1LC3B2
chr1	203283371	203300255	LuminaB,LuminaA	3.32	17150	BTG2
chr4	166551377	166553831	Normal	3.31	-53186	LINC01179
chr3	52070607	52076394	Normal,TNBC-Basal	3.31	16961	DUSP7
chr20	18243265	18246031	Normal	3.31	-24278	ZNF133
chr2	19236468	19240472	Normal,TNBC-ClaudinLow	3.31	-309719	MIR4757
chr2	164517415	164526628	Normal,TNBC-ClaudinLow	3.31	70492	FIGN
chr2	144154619	144158059	Normal	3.31	269441	ARHGAP15
chr13	40603930	40606951	Normal	3.31	-150505	LINC00332
chr11	104451235	104453493	Normal	3.31	27666	LOC102723895
chr10	78140714	78144271	Normal	3.31	-505309	KCNMA1-AS1
chr8	29488817	29496457	Normal,TNBC-ClaudinLow	3.3	112988	LINC00589
chr3	57643837	57645787	Normal	3.3	34004	DENND6A
chr3	178815430	178817335	Normal	3.3	-26726	ZMAT3
chr17	5682637	5685119	Normal	3.3	8325	LOC339166
chr16	67088752	67092044	Normal	3.3	27349	CBFB
chr11	12859135	12864732	Normal	3.3	149162	LINC00958
chr1	53039194	53041793	Normal	3.3	-21731	ZCCHC11
chr9	134915792	134920009	Normal,TNBC-ClaudinLow	3.29	37374	MED27
chr7	125063731	125065908	Normal	3.29	-160474	LOC101928254
chr7	116001694	116005048	Normal	3.29	-136283	CAV2
chr4	186602489	186604619	Normal	3.29	-25431	SORBS2
chr4	10129791	10132480	Normal,TNBC-ClaudinLow	3.29	-12562	WDR1
chr3	71736273	71741183	Normal	3.29	35798	EIF4E3
chr22	30237452	30240405	Normal	3.29	-4635	ASCC2
chr20	44238612	44241343	Normal	3.29	-18407	WFDC10A
chr2	144858850	144861298	Normal	3.29	109072	GTDC1
chr15	44378507	44381644	Normal,TNBC-ClaudinLow	3.29	106569	FRMD5
chr15	102214046	102217767	Normal,TNBC-ClaudinLow	3.29	-23312	TM2D3
chr5	79269895	79271972	Normal	3.28	16155	MTX3
chr3	107002061	107004846	Normal	3.28	43915	LINC00883
chr3	106982520	106985316	Normal	3.28	24380	LINC00883
chr17	27964136	27975995	Normal	3.28	-21624	CORO6
chr15	53902742	53905142	TNBC-ClaudinLow	3.28	-70642	WDR72
chr13	75440941	75448197	Normal	3.28	317590	LINC00347
chr1	238809006	238818893	Normal,TNBC-ClaudinLow	3.28	-164632	LINC01139
chrX	85393714	85395650	Normal	3.27	-8772	DACH2
chr8	29229656	29233026	Normal,TNBC-ClaudinLow	3.27	-23074	DUSP4
chr4	151055371	151059283	TNBC-ClaudinLow	3.27	57902	DCLK2
chr2	101357903	101360270	Normal,TNBC-ClaudinLow	3.27	-77526	NPAS2
chr15	29260118	29262610	TNBC-ClaudinLow	3.27	47525	APBA2
chr13	97895121	97904084	Normal,TNBC-Basal	3.27	25053	MBNL2
chr13	40958650	40960842	Normal	3.27	95397	LINC00598
chr12	67927124	67930096	Normal	3.27	14749	LOC100507175
chr11	47527681	47538710	Normal,TNBC-Basal,TNBC-ClaudinLow	3.27	12345	CELF1
chr10	121444722	121448034	Normal,TNBC-ClaudinLow	3.27	35497	BAG3
chr10	116450384	116455251	TNBC-ClaudinLow	3.27	-8403	ABLIM1
chr1	228659362	228662214	TNBC-ClaudinLow	3.27	11014	MIR4666A
chr1	227244776	227247753	Normal	3.27	118327	ADCK3
chrX	80019771	80022216	Normal,TNBC-ClaudinLow	3.26	44240	BRWD3
chr8	16689210	16690546	TNBC-ClaudinLow	3.26	169796	FGF20
chr5	121485804	121492634	Normal	3.26	-6651	LOC100505841
chr3	182833552	182834677	LuminaB	3.26	-16739	MCCC1
chr21	39158096	39161500	Normal,TNBC-ClaudinLow	3.26	128943	KCNJ6
chr16	77867028	77868923	TNBC-ClaudinLow	3.26	45493	VAT1L
chr13	21386721	21391381	Normal,TNBC-ClaudinLow	3.26	-40994	N6AMT2
chr11	7912600	7915833	Normal,TNBC-ClaudinLow	3.26	13286	LOC283299
chr11	19399827	19403466	Normal,TNBC-ClaudinLow	3.26	29376	NAV2
chrX	104807357	104809792	Normal	3.25	-257961	NRK
chr20	6498708	6501796	Normal	3.25	92874	CASC20
chr2	7964573	7967490	Normal,TNBC-Basal	3.25	73755	LOC101929551
chr17	29600018	29603004	Normal	3.25	22869	OMG
chr13	64827503	64832507	LuminaB	3.25	-517854	LINC00395
chr11	74755317	74759397	TNBC-ClaudinLow	3.25	43401	OR2AT4
chr10	37433767	37444358	LuminaB	3.25	24278	ANKRD30A
chr1	228855816	228858706	LuminaB,LuminaA,HER2	3.25	-13562	RHOU
chr7	140305986	140312805	TNBC-ClaudinLow	3.24	-7053	DENND2A
chr7	137221722	137225539	Normal,TNBC-ClaudinLow	3.24	-195084	PTN
chr6	38272554	38278404	LuminaB	3.24	288364	BTBD9
chr6	144664239	144666320	Normal	3.24	52407	UTRN
chr6	135854909	135860699	Normal,TNBC-ClaudinLow	3.24	38866	LINC00271
chr5	55306617	55309471	TNBC-ClaudinLow	3.24	17050	FLJ31104
chr4	85493587	85496275	Normal	3.24	-9125	CDS1
chr2	108345806	108348823	TNBC-ClaudinLow	3.24	-23253	GACAT1
chr18	33014885	33019262	Normal	3.24	-59772	ZNF396
chr18	12628352	12631509	Normal,TNBC-Basal,TNBC-ClaudinLow	3.24	26801	SPIRE1
chr16	72526756	72529387	Normal	3.24	170837	LOC101927957
chr14	87139021	87141164	Normal	3.24	-232029	LOC283585
chrX	128626753	128631710	TNBC-ClaudinLow	3.23	28251	SMARCA1
chr6	41995182	41999708	TNBC-ClaudinLow	3.23	19187	CCND3
chr6	169826833	169829453	TNBC-ClaudinLow	3.23	-173934	THBS2
chr6	132383382	132386322	Normal	3.23	-70265	LINC01013
chr4	78062282	78070282	Normal,LuminaB,LuminaA,HER2	3.23	-12074	CCNG2
chr3	88760798	88764085	Normal	3.23	-394232	EPHA3
chr21	43069999	43075465	Normal,TNBC-Basal,HER2	3.23	-26729	LINC00111
chr2	98949348	98952327	Normal,TNBC-ClaudinLow	3.23	-11780	CNGA3
chr2	206563727	206567765	Normal,TNBC-ClaudinLow	3.23	18523	NRP2
chr17	44132888	44136404	Normal	3.23	58031	STH
chr11	8670300	8672108	Normal,TNBC-ClaudinLow	3.23	9179	TRIM66
chr10	120629079	120634545	Normal,TNBC-ClaudinLow	3.23	-117054	CACUL1
chrX	13862334	13865208	Normal	3.22	-28457	GPM6B
chr8	60374525	60376379	Normal	3.22	-343685	TOX
chr8	410396	413512	Normal,TNBC-ClaudinLow	3.22	55147	FBXO25
chr7	79182452	79184420	TNBC-ClaudinLow	3.22	100161	MAGI2-AS3
chr6	20809957	20813309	Normal,TNBC-Basal,TNBC-ClaudinLow	3.22	276946	CDKAL1
chr5	95949108	95953441	Normal,TNBC-ClaudinLow	3.22	-46466	CAST
chr4	73722908	73725502	TNBC-ClaudinLow	3.22	211271	COX18
chr2	26850679	26861860	LuminaB	3.22	7942	CIB4
chr2	181900526	181903925	Normal	3.22	56375	UBE2E3
chr15	61972295	61977129	LuminaB	3.22	377952	VPS13C
chr1	198135968	198140657	Normal	3.22	12205	NEK7
chr9	36073972	36075822	Normal	3.21	37988	RECK
chr4	4216869	4219595	Normal,TNBC-ClaudinLow	3.21	10389	OTOP1
chr4	103059314	103062606	Normal	3.21	184509	SLC39A8
chr17	5418600	5420827	Normal,TNBC-ClaudinLow	3.21	-15394	LOC728392
chr10	73727688	73743528	Normal,TNBC-Basal,TNBC-ClaudinLow	3.21	11489	CHST3
chrX	41349782	41352034	Normal,TNBC-Basal,TNBC-ClaudinLow	3.2	44196	NYX
chr8	17204955	17208619	TNBC-ClaudinLow	3.2	64253	MTMR7
chr7	22690130	22693263	TNBC-ClaudinLow	3.2	13456	LOC401312
chr7	104611673	104615739	Normal	3.2	17906	LINC01004
chr5	136655272	136657371	Normal	3.2	178697	SPOCK1
chr3	188343480	188347905	Normal	3.2	-59238	LPP-AS1
chr21	19292824	19295465	Normal	3.2	4488	CHODL
chr20	4070477	4073110	TNBC-ClaudinLow	3.2	-57632	SMOX
chr15	31314789	31317926	Normal,TNBC-ClaudinLow	3.2	-32550	MTMR10
chr14	45666932	45669563	Normal	3.2	54358	MIS18BP1
chr7	148480449	148482593	Normal	3.19	85589	CUL1
chr6	107428541	107430922	TNBC-ClaudinLow	3.19	5905	BEND3
chr22	40871674	40884797	Normal,TNBC-Basal	3.19	-18791	MKL1
chr2	237775139	237786902	Normal,LuminaB,TNBC-ClaudinLow,HER2	3.19	-213063	COPS8
chr11	111399136	111404089	Normal,TNBC-ClaudinLow	3.19	-9620	LAYN
chr8	119498307	119508045	HER2	3.18	-130063	SAMD12-AS1
chr7	18459171	18462397	Normal	3.18	-74584	HDAC9
chr7	139130109	139133492	LuminaB,LuminaA,HER2	3.18	-19528	LOC100129148
chr5	71009073	71012908	LuminaB,LuminaA	3.18	-3999	CARTPT
chr2	151127805	151130091	Normal	3.18	215261	RND3
chr2	145914489	145917110	Normal	3.18	490266	TEX41
chr18	46846902	46849776	Normal	3.18	138740	DYM
chr12	102311488	102314593	LuminaB	3.18	41936	DRAM1
chr10	81912507	81916752	Normal	3.18	22372	PLAC9
chr1	169491469	169501664	LuminaB,LuminaA,TNBC-Basal,HER2	3.18	-41358	SLC19A2
chr16	85748632	85760699	LuminaB,LuminaA,TNBC-Basal,HER2	3.17	20641	MIR1910
chr14	68435908	68440843	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	3.17	151880	RAD51B
chr13	34510998	34516589	Normal	3.17	121588	RFC3
chr12	113578667	113581786	TNBC-Basal	3.17	-6182	RASAL1
chr1	59478092	59483446	Normal,TNBC-Basal,TNBC-ClaudinLow	3.17	-5378	LINC01358
chr1	36472300	36475437	Normal,TNBC-ClaudinLow	3.17	-75807	TEKT2
chr1	119488892	119494482	TNBC-ClaudinLow	3.17	40492	TBX15
chr8	80779242	80796430	HER2	3.16	-3864	LOC101927040
chr6	58522647	58526388	Normal	3.16	-236793	GUSBP4
chr3	11430787	11436402	Normal	3.16	119585	ATG7
chr2	175017949	175020606	Normal	3.16	94088	OLA1
chr2	169380070	169389603	Normal	3.16	-54616	MIR4774
chr12	127790231	127792626	Normal	3.16	33189	LOC101927616
chr11	64139435	64141665	TNBC-Basal,TNBC-ClaudinLow,HER2	3.16	4477	MIR1237
chr11	19773097	19777150	HER2	3.16	6506	MIR4694
chr11	130453248	130456748	Normal	3.16	-81631	MIR8052
chr1	234724031	234726270	Normal	3.16	20121	IRF2BP2
chr1	231628372	231630703	TNBC-ClaudinLow	3.16	-17266	SNRPD2P2
chr9	3918197	3922081	HER2	3.15	21494	GLIS3-AS1
chr4	6942109	6947359	Normal,TNBC-ClaudinLow	3.15	33240	TBC1D14
chr4	147175629	147178411	TNBC-ClaudinLow	3.15	80186	LSM6
chr3	12574973	12577059	TNBC-ClaudinLow	3.15	10947	MKRN2OS
chr16	57903635	57906803	Normal,TNBC-Basal,TNBC-ClaudinLow	3.15	60671	LOC388282
chr15	34973441	34977169	Normal,TNBC-ClaudinLow	3.15	71477	GJD2
chr14	75113740	75133167	Normal	3.15	-44419	LTBP2
chr13	107164228	107169314	Normal	3.15	20617	EFNB2
chr12	104656145	104659130	Normal	3.15	-22822	TXNRD1
chr11	64650415	64654278	TNBC-ClaudinLow	3.15	-5161	EHD1
chr11	129505774	129515438	Normal,TNBC-Basal,TNBC-ClaudinLow	3.15	-23442	LINC01395
chr1	62890615	62893594	TNBC-Basal	3.15	-9870	USP1
chr1	236269000	236271181	TNBC-ClaudinLow	3.15	-35741	GPR137B
chr6	161512430	161514710	Normal	3.14	69444	AGPAT4-IT1
chr5	78100774	78104072	Normal,TNBC-ClaudinLow	3.14	-157775	LHFPL2
chr5	138978831	138981625	Normal	3.14	39478	UBE2D2
chr4	129235743	129238665	Normal	3.14	-27220	PGRMC2
chr22	45621048	45623594	Normal	3.14	-13974	KIAA0930
chr15	82423820	82426459	Normal	3.14	44205	LOC101929690
chr11	132473697	132475054	TNBC-ClaudinLow	3.14	320180	NTM-IT
chr7	92345607	92349018	Normal,TNBC-Basal	3.13	115919	CDK6
chr7	151144823	151146485	TNBC-ClaudinLow	3.13	-8555	CRYGN
chr5	134938115	134942864	LuminaB	3.13	-25520	CXCL14
chr4	109387293	109389868	Normal	3.13	153033	RPL34-AS1
chr4	103456006	103459814	Normal	3.13	35425	NFKB1
chr20	14367472	14369805	Normal	3.13	-50325	FLRT3
chr2	46169941	46174794	TNBC-ClaudinLow	3.13	293325	PRKCE
chr2	217963477	217973075	Normal,TNBC-ClaudinLow	3.13	-243494	TNP1
chr17	20091730	20095804	Normal	3.13	34461	SPECC1
chr16	47537710	47539463	Normal	3.13	43377	PHKB
chr16	23680321	23682713	Normal	3.13	-8683	PLK1
chr10	81075820	81084724	Normal,TNBC-ClaudinLow	3.13	-26947	PPIF
chrX	149200586	149210701	LuminaB,TNBC-ClaudinLow	3.12	98878	LINC00894
chr9	113702739	113705659	Normal	3.12	96166	LPAR1
chr8	37913232	37917268	Normal	3.12	27231	EIF4EBP1
chr8	16435214	16437321	Normal,TNBC-ClaudinLow	3.12	-385967	MSR1
chr4	98575461	98578499	Normal	3.12	288904	STPG2-AS1
chr3	178743877	178746991	Normal	3.12	44222	ZMAT3
chr19	4041392	4045011	LuminaB,LuminaA,TNBC-Basal,HER2	3.12	23615	ZBTB7A
chr18	27756133	27758892	Normal	3.12	-121363	MIR302F
chr10	37466824	37468020	LuminaB	3.12	52638	ANKRD30A
chr1	160917617	160924700	Normal	3.12	3431	ITLN2
chr7	129514286	129520216	Normal	3.11	75532	UBE2H
chr5	76253496	76256548	TNBC-ClaudinLow	3.11	6343	CRHBP
chr5	55454474	55456438	TNBC-ClaudinLow	3.11	73730	ANKRD55
chr5	49718478	49720647	Normal	3.11	17672	EMB
chr4	168202989	168204870	Normal	3.11	-48188	SPOCK3
chr20	4930526	4932995	Normal,TNBC-Basal	3.11	50385	SLC23A2
chr2	235781519	235783417	TNBC-ClaudinLow	3.11	-78159	SH3BP4
chr2	122228644	122235435	Normal	3.11	-56416	RNU4ATAC
chr16	89901027	89906830	LuminaB,LuminaA,TNBC-Basal,HER2	3.11	9022	SPIRE2
chr16	12822060	12825010	Normal	3.11	9358	MIR4718
chr14	103978343	103980468	Normal	3.11	9791	CKB
chr12	1222488	1226932	Normal,TNBC-Basal	3.11	87797	ERC1
chr7	3474884	3480614	Normal,TNBC-ClaudinLow	3.1	136670	SDK1
chr7	3253176	3258572	LuminaB,LuminaA	3.1	-57668	LOC100129603
chr6	12804161	12806396	TNBC-ClaudinLow	3.1	88242	PHACTR1
chr4	182983725	182984421	Normal	3.1	81595	LOC90768
chr4	101902165	101908319	Normal	3.1	256787	MIR8066
chr2	227766445	227770163	Normal,TNBC-ClaudinLow	3.1	67634	RHBDD1
chr2	204486424	204489497	TNBC-ClaudinLow	3.1	-83237	CD28
chr2	139754020	139757801	TNBC-ClaudinLow	3.1	101017	YY1P2
chr17	67042765	67044907	Normal	3.1	13300	ABCA9
chr15	51482681	51485322	Normal	3.1	-50385	MIR4713
chr12	28240702	28243723	Normal	3.1	-117296	PTHLH
chr12	22433845	22441959	Normal,TNBC-ClaudinLow	3.1	49746	ST8SIA1
chr12	120713947	120715541	TNBC-ClaudinLow	3.1	-11170	PXN
chr4	61476167	61479795	Normal	3.09	-884857	LPHN3
chr4	5166506	5169046	TNBC-ClaudinLow	3.09	114250	STK32B
chr4	22191431	22194837	TNBC-ClaudinLow	3.09	148155	LOC100505912
chr3	71599407	71602014	Normal	3.09	-8002	FOXP1
chr18	73842444	73844296	Normal	3.09	8418	LOC339298
chr18	56025498	56027888	Normal	3.09	-91612	MIR122
chr15	86790420	86791695	Normal	3.09	69142	AGBL1-AS1
chr14	61490634	61494136	Normal,TNBC-ClaudinLow	3.09	44421	SLC38A6
chr10	62204439	62208492	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	3.09	-56831	ANK3
chr7	7810747	7813350	Normal	3.08	-53810	RPA3
chr7	40847070	40849242	Normal	3.08	171381	LINC01450
chr5	110865216	110867094	Normal,TNBC-ClaudinLow	3.08	-17998	STARD4
chr4	39856470	39858704	TNBC-ClaudinLow	3.08	121989	PDS5A
chr2	23990068	23992171	Normal	3.08	158865	ATAD2B
chr2	238170071	238174539	Normal,TNBC-ClaudinLow	3.08	150545	COL6A3
chr17	11991876	11994945	Normal,TNBC-ClaudinLow	3.08	8195	MIR744
chr16	75116592	75135108	LuminaB,LuminaA,TNBC-Basal,HER2	3.08	24820	LDHD
chr13	32322615	32326445	Normal,TNBC-ClaudinLow	3.08	10852	RXFP2
chr12	14391074	14394976	LuminaB,LuminaA,TNBC-Basal,HER2	3.08	-125540	ATF7IP
chr10	133814013	133815702	LuminaA	3.08	-19422	BNIP3
chr5	141579530	141583100	TNBC-ClaudinLow	3.07	92992	NDFIP1
chr5	102057120	102060240	Normal,TNBC-ClaudinLow	3.07	-51512	LINC00491
chr4	126187425	126189649	Normal	3.07	-49029	FAT4
chr18	13796053	13799812	Normal,TNBC-Basal,TNBC-ClaudinLow	3.07	-27610	MC5R
chr15	40168731	40171944	Normal,TNBC-ClaudinLow	3.07	42756	GPR176
chr14	64519753	64521916	Normal,TNBC-ClaudinLow	3.07	-160024	SYNE2
chr10	21388083	21391633	Normal	3.07	45630	C10orf113
chr1	206683794	206689649	Normal,TNBC-Basal,TNBC-ClaudinLow	3.07	5859	RASSF5
chr8	94077085	94083594	LuminaB,LuminaA	3.06	38361	MIR8084
chr6	142871494	142874060	Normal	3.06	86196	LOC153910
chr6	101985950	101989460	Normal	3.06	140845	GRIK2
chr18	56580081	56582725	Normal	3.06	51343	ZNF532
chr17	74546154	74548781	Normal,LuminaA	3.06	-6378	SNHG16
chr15	57440257	57443220	Normal	3.06	-69916	TCF12
chr13	33821722	33841529	Normal	3.06	-20065	STARD13-AS
chr1	76488152	76491401	Normal	3.06	12768	LOC101927342
chr1	178707419	178709728	Normal	3.06	14292	RALGPS2
chrX	71577291	71579703	Normal,TNBC-ClaudinLow	3.05	-51460	CITED1
chrX	16202311	16206584	Normal,TNBC-ClaudinLow	3.05	18844	MAGEB17
chr8	19027637	19030164	Normal,TNBC-ClaudinLow	3.05	74132	LOC100128993
chr6	41455466	41457579	TNBC-ClaudinLow	3.05	-13659	LINC01276
chr5	9715100	9718290	Normal	3.05	-86232	TAS2R1
chr5	58812287	58815863	Normal	3.05	68249	PDE4D
chr4	102850754	102857164	LuminaB,LuminaA	3.05	118977	BANK1
chr2	10671834	10676275	TNBC-ClaudinLow	3.05	84201	LOC101929715
chr19	43303422	43305389	Normal,TNBC-ClaudinLow	3.05	-21609	LOC100289650
chr13	52129727	52133746	Normal,TNBC-ClaudinLow	3.05	5012	MIR4703
chr13	102049756	102055483	Normal,TNBC-ClaudinLow	3.05	16194	NALCN
chr11	108740018	108745820	Normal,TNBC-ClaudinLow	3.05	207168	DDX10
chrX	80513482	80519747	Normal,TNBC-Basal	3.04	-59173	HMGN5
chr21	39806238	39808284	Normal	3.04	63167	ERG
chr2	227110773	227114293	Normal	3.04	105024	LOC646736
chr2	191460933	191464821	Normal	3.04	-50970	NAB1
chr18	74451167	74453919	Normal	3.04	50558	LOC400661
chr18	61001955	61005053	Normal,TNBC-ClaudinLow	3.04	-16891	BCL2
chr16	76965542	76967600	Normal	3.04	63739	MIR4719
chr12	106483712	106486110	Normal	3.04	48900	NUAK1
chr11	104442884	104445389	Normal	3.04	35894	LOC102723895
chrX	81980128	81985348	Normal,TNBC-ClaudinLow	3.03	-780530	POU3F4
chrX	147959069	147962108	Normal,TNBC-ClaudinLow	3.03	159974	AFF2
chr7	66489566	66491738	Normal,TNBC-ClaudinLow	3.03	28861	TYW1
chr7	133119829	133121893	Normal	3.03	145227	MIR6133
chr5	92520987	92523219	Normal	3.03	384946	NR2F1-AS1
chr5	132117168	132118951	Normal,TNBC-ClaudinLow	3.03	-4498	SEPT8
chr4	127819456	127822172	Normal	3.03	-733272	INTU
chr17	78755191	78758180	TNBC-ClaudinLow	3.03	22747	LOC101928855
chr13	102171944	102174628	Normal,TNBC-ClaudinLow	3.03	30984	ITGBL1
chr10	92183839	92185784	Normal	3.03	115751	LOC101926942
chr1	166157901	166159630	TNBC-ClaudinLow	3.03	-22807	FAM78B
chr7	98150705	98153770	LuminaB	3.02	-94359	NPTX2
chr7	24780488	24782915	Normal,TNBC-ClaudinLow	3.02	15382	DFNA5
chr7	134603271	134606657	Normal	3.02	28814	CALD1
chr5	151274613	151278647	Normal,TNBC-ClaudinLow	3.02	27767	GLRA1
chr3	184290145	184301849	TNBC-Basal	3.02	16411	EPHB3
chr22	30420021	30426421	TNBC-Basal	3.02	20184	MIR6818
chr15	87573917	87575995	Normal	3.02	-545203	LINC00052
chr15	39948580	39951213	Normal,TNBC-ClaudinLow	3.02	76617	THBS1
chr13	69451616	69455520	LuminaB	3.02	5889	LINC00550
chr12	78888291	78889403	Normal	3.02	-368925	SYT1
chr11	115605751	115608184	LuminaB,HER2	3.02	23951	LINC00900
chr9	132266560	132272076	TNBC-ClaudinLow	3.01	18380	LINC00963
chr8	2049007	2050380	TNBC-ClaudinLow	3.01	25025	MIR7160
chr7	44125960	44129528	Normal,TNBC-ClaudinLow	3.01	-5605	POLM
chr4	34171377	34174343	TNBC-ClaudinLow	3.01	-131345	LOC101928622
chr4	189307278	189309665	Normal	3.01	-68260	LINC01060
chr4	123813991	123821703	Normal,TNBC-Basal,TNBC-ClaudinLow	3.01	25914	NUDT6
chr3	142216178	142221577	Normal	3.01	-51973	XRN1
chr22	41022776	41025347	Normal	3.01	8662	MKL1
chr20	14386015	14389180	Normal	3.01	-69284	FLRT3
chr2	29327727	29355144	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	3.01	3144	CLIP4
chr17	35213030	35217547	Normal,TNBC-Basal	3.01	-79483	LHX1
chr12	130091927	130093358	TNBC-ClaudinLow	3.01	295570	TMEM132D
chr12	118544143	118547023	LuminaB	3.01	-3773	VSIG10
chr11	65885012	65889006	Normal,TNBC-ClaudinLow	3.01	49186	PACS1
chr5	56783234	56785682	Normal,TNBC-ClaudinLow	3	-5822	ACTBL2
chr3	99280581	99284745	Normal,TNBC-ClaudinLow	3	-74776	COL8A1
chr22	23265157	23271710	LuminaB	3	38474	IGLL5
chr13	111683167	111685293	TNBC-ClaudinLow	3	-63954	LINC00368
chr13	106293964	106295847	TNBC-ClaudinLow	3	-64273	LINC00343
chr12	25946717	25948703	Normal,TNBC-ClaudinLow	3	79302	MIR4302
chr1	33260546	33268016	Normal	3	-18761	S100PBP
chr1	167423450	167425885	Normal,LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow	3	63180	CD247
chr9	114627973	114630938	Normal,TNBC-ClaudinLow	2.99	-29750	UGCG
chr8	79436429	79446050	Normal,LuminaB	2.99	12904	PKIA
chr8	71468090	71472447	Normal	2.99	50426	TRAM1
chr6	134125015	134126717	TNBC-ClaudinLow	2.99	-16418	LINC01312
chr4	8515968	8519166	TNBC-ClaudinLow	2.99	-64396	GPR78
chr4	58001705	58007563	Normal,TNBC-ClaudinLow	2.99	-28083	IGFBP7
chr4	27049635	27054666	LuminaB	2.99	-166950	LOC101929199
chr2	191409456	191411216	Normal,TNBC-Basal	2.99	-10868	TMEM194B
chr2	148111946	148114044	TNBC-Basal	2.99	-489090	ACVR2A
chr19	43630502	43632634	Normal	2.99	-44675	PSG2
chr18	70673678	70675986	Normal	2.99	-140022	NETO1
chr13	41162195	41165621	Normal	2.99	76826	FOXO1
chr12	116735453	116738763	LuminaB,LuminaA	2.99	-22117	MED13L
chr12	1061609	1064313	TNBC-ClaudinLow	2.99	-4073	RAD52
chr11	110198556	110200120	TNBC-Basal	2.99	-31901	RDX
chr11	100678352	100682132	TNBC-ClaudinLow	2.99	121836	ARHGAP42
chr1	38685923	38689863	Normal	2.99	-7454	LINC01343
chr8	17563907	17566522	Normal,TNBC-ClaudinLow	2.98	-9968	MTUS1
chr3	11455754	11458439	Normal	2.98	143087	ATG7
chr3	111430439	111432364	Normal	2.98	-19925	PHLDB2
chr22	40671786	40674018	Normal,TNBC-Basal,TNBC-ClaudinLow	2.98	-69601	ADSL
chr2	28174837	28187801	Normal,TNBC-Basal,TNBC-ClaudinLow	2.98	-37914	MIR4263
chr2	230207454	230210363	Normal	2.98	-72851	PID1
chr19	21182224	21183724	LuminaB,LuminaA,TNBC-Basal	2.98	-20451	ZNF430
chr17	65524287	65526106	TNBC-ClaudinLow	2.98	151800	PITPNC1
chr12	64852342	64854282	Normal	2.98	7473	TBK1
chr10	35031601	35034117	Normal	2.98	71394	PARD3
chr9	75047811	75050199	Normal,TNBC-Basal,TNBC-ClaudinLow	2.97	-68842	ZFAND5
chr7	92323332	92329444	Normal,TNBC-Basal,TNBC-ClaudinLow	2.97	-106680	FAM133B
chr5	59080444	59091025	Normal,TNBC-ClaudinLow	2.97	-21296	PDE4D
chr4	74687370	74689762	Normal	2.97	-13706	CXCL6
chr4	39503011	39504841	Normal	2.97	22052	LOC401127
chr21	17933764	17938562	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	2.97	24016	MIRLET7C
chr19	43390931	43395450	Normal,TNBC-ClaudinLow	2.97	-9319	PSG1
chr15	62694163	62696730	TNBC-ClaudinLow	2.97	60219	MIR6085
chr11	13093921	13100459	Normal,TNBC-ClaudinLow	2.97	66221	RASSF10
chr10	106018596	106022114	Normal,TNBC-ClaudinLow	2.97	5888	GSTO1
chrX	65294102	65295810	TNBC-ClaudinLow	2.96	-34989	VSIG4
chr6	140062999	140066834	Normal,TNBC-ClaudinLow	2.96	-27293	LOC100132735
chr4	151047199	151049455	TNBC-ClaudinLow	2.96	48902	DCLK2
chr3	37204071	37205905	Normal	2.96	11108	LRRFIP2
chr21	16612069	16617070	Normal	2.96	-177443	NRIP1
chr11	29548314	29549745	Normal,TNBC-ClaudinLow	2.96	489548	KCNA4
chr8	22507288	22510602	Normal,TNBC-Basal	2.95	-9223	BIN3-IT1
chr7	90038701	90042800	HER2	2.95	8103	CLDN12
chr4	152233306	152238688	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	2.95	37673	PRSS48
chr3	100672690	100675157	Normal	2.95	38411	ABI3BP
chr2	216461591	216469595	Normal	2.95	147164	LOC102724849
chr2	186446071	186450138	Normal,TNBC-ClaudinLow,HER2	2.95	-155250	FSIP2
chr2	142317293	142325369	LuminaB,LuminaA	2.95	567939	LRP1B
chr19	46929261	46930443	TNBC-ClaudinLow	2.95	-12933	CCDC8
chr18	20881566	20885535	Normal,TNBC-ClaudinLow	2.95	134375	TMEM241
chr16	53775469	53782199	Normal,TNBC-Basal	2.95	40960	FTO
chr15	52997576	52999746	Normal	2.95	-27830	FAM214A
chr15	32991216	32995176	Normal,TNBC-ClaudinLow	2.95	-17008	GREM1
chr12	96815586	96825974	Normal,TNBC-ClaudinLow	2.95	-26414	CDK17
chr12	130041579	130043622	TNBC-ClaudinLow	2.95	345612	TMEM132D
chr1	40071001	40073219	TNBC-ClaudinLow	2.95	-29589	PABPC4
chr1	189588099	189590080	Normal	2.95	857670	BRINP3
chrX	119637599	119639684	Normal	2.94	-35437	LAMP2
chr9	37920391	37931192	Normal,TNBC-ClaudinLow	2.94	-21441	SLC25A51
chr8	128436988	128443546	Normal,HER2	2.94	12411	POU5F1B
chr7	106248607	106251169	Normal,TNBC-ClaudinLow	2.94	51746	CCDC71L
chr3	69469140	69473229	Normal	2.94	-35729	FRMD4B
chr17	70058605	70062358	TNBC-Basal	2.94	-6606	LOC102723517
chr16	89929338	89931801	Normal	2.94	-9424	TCF25
chr13	43840958	43845540	Normal,TNBC-ClaudinLow	2.94	155949	LINC00400
chr12	130015676	130016908	TNBC-ClaudinLow	2.94	323147	LOC101927735
chr11	130815627	130818617	Normal	2.94	-30740	SNX19
chr11	129905819	129908757	Normal	2.94	-32427	APLP2
chr10	114801125	114809408	Normal	2.94	95258	TCF7L2
chrX	48354179	48358361	Normal,TNBC-ClaudinLow	2.93	-11076	PORCN
chr9	36469939	36472284	Normal,TNBC-Basal,TNBC-ClaudinLow	2.93	-69916	RNF38
chr5	95458789	95462139	Normal	2.93	45623	MIR583
chr5	40223257	40225269	TNBC-ClaudinLow	2.93	171871	LINC00603
chr3	93943755	93946170	Normal,TNBC-ClaudinLow	2.93	-162895	DHFRL1
chr3	89073207	89075710	Normal	2.93	-82215	EPHA3
chr21	16620509	16624776	Normal	2.93	-185516	NRIP1
chr13	95735076	95737709	Normal,TNBC-ClaudinLow	2.93	217308	ABCC4
chr10	52867899	52870701	Normal,TNBC-ClaudinLow	2.93	35067	PRKG1
chr10	125977786	125980801	TNBC-ClaudinLow	2.93	-126170	CHST15
chr1	35512183	35513742	Normal,TNBC-ClaudinLow	2.93	-12424	ZMYM1
chr1	171867498	171869509	Normal	2.93	57886	DNM3
chr9	18904465	18907278	TNBC-ClaudinLow	2.92	127385	FAM154A
chr8	74218285	74229556	HER2	2.92	17084	RDH10
chr7	54416036	54418206	Normal	2.92	18732	LINC01445
chr7	20338906	20343380	Normal,TNBC-ClaudinLow	2.92	4813	LOC101927769
chr6	158450783	158454400	Normal,TNBC-ClaudinLow	2.92	14512	SYNJ2
chr5	80166765	80168712	TNBC-ClaudinLow	2.92	-88769	RASGRF2
chr2	226977773	226992220	Normal,LuminaB,LuminaA,TNBC-ClaudinLow	2.92	-22513	LOC646736
chr2	190232944	190237103	Normal,TNBC-ClaudinLow	2.92	-71135	WDR75
chr17	74487285	74490696	TNBC-ClaudinLow	2.92	-4999	RHBDF2
chr16	23129680	23133379	Normal	2.92	29062	USP31
chr11	85870443	85875306	Normal	2.92	-82931	EED
chr1	85871154	85874905	Normal,TNBC-Basal	2.92	57860	DDAH1
chr1	61749320	61755438	Normal,TNBC-Basal,HER2	2.92	-33189	NFIA-AS1
chr1	198886432	198890344	Normal	2.92	18170	MIR181A1HG
chr8	38439658	38442191	LuminaB	2.91	17851	RNF5P1
chr5	15248470	15250725	TNBC-ClaudinLow	2.91	17072	LOC101929454
chr5	148702163	148706105	Normal	2.91	-20842	GRPEL2
chr4	74998470	75000722	Normal,TNBC-ClaudinLow	2.91	-24232	MTHFD2L
chr2	192240534	192243412	Normal,TNBC-ClaudinLow	2.91	131720	MYO1B
chr2	191441191	191446301	Normal,TNBC-Basal	2.91	-44278	TMEM194B
chr2	161251989	161256075	Normal,TNBC-Basal,TNBC-ClaudinLow	2.91	10361	MIR4785
chr15	52773031	52776982	Normal	2.91	46241	MYO5A
chr15	42100465	42103905	TNBC-ClaudinLow	2.91	-18097	JMJD7-PLA2G4B
chrX	46831362	46839808	LuminaB	2.9	63718	JADE3
chr7	109238719	109241616	LuminaB,LuminaA	2.9	360103	EIF3IP1
chr6	161415591	161419493	Normal	2.9	4784	MAP3K4
chr5	172856143	172857998	TNBC-ClaudinLow	2.9	82613	MIR8056
chr20	14823778	14828337	Normal,LuminaA,HER2	2.9	84107	MACROD2-AS1
chr17	33348610	33351671	Normal,TNBC-ClaudinLow	2.9	40619	RFFL
chr16	11197746	11200307	TNBC-ClaudinLow	2.9	151013	SOCS1
chr15	55573127	55577175	TNBC-ClaudinLow	2.9	6862	RAB27A
chr14	55103145	55106068	TNBC-ClaudinLow	2.9	70277	SAMD4A
chr12	87911502	87913595	Normal	2.9	265940	MKRN9P
chr12	63290806	63297592	LuminaB,LuminaA,HER2	2.9	34466	PPM1H
chr11	121954432	121958085	Normal	2.9	14294	MIR125B1
chr10	11076415	11078496	TNBC-ClaudinLow	2.9	17563	CELF2
chr1	215674180	215676483	Normal	2.9	-65403	KCTD3
chr1	186144007	186146095	Normal	2.9	-120353	PRG4
chr8	94170887	94174251	LuminaB,LuminaA	2.89	6510	C8orf87
chr8	34840585	34843146	Normal	2.89	200427	LINC01288
chr6	75305699	75309760	Normal	2.89	528563	LOC101928516
chr6	160456025	160459496	Normal,TNBC-ClaudinLow	2.89	-29064	AIRN
chr4	76668499	76671738	Normal	2.89	20413	USO1
chr4	141228716	141231785	Normal	2.89	-34346	SCOC
chr3	165700430	165702326	Normal	2.89	-146125	BCHE
chr3	134162665	134167500	Normal	2.89	8414	MIR4788
chr22	19053844	19055211	Normal	2.89	-18639	DGCR11
chr21	18863453	18866073	Normal,TNBC-ClaudinLow	2.89	-20460	CXADR
chr2	39793031	39799702	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	2.89	-96271	TMEM178A
chr2	212802146	212807633	LuminaB,LuminaA	2.89	486195	MIR548F2
chr19	52118197	52120587	LuminaB	2.89	14335	SIGLEC5
chr19	38651884	38653964	Normal	2.89	61966	DPF1
chr19	2616601	2638180	Normal,TNBC-ClaudinLow	2.89	75356	GNG7
chr14	99468861	99471919	LuminaB,LuminaA	2.89	267660	BCL11B
chr12	52900045	52902284	Normal	2.89	13079	KRT5
chr11	27997437	27999671	TNBC-ClaudinLow	2.89	-79807	MIR610
chr10	70751402	70754243	Normal	2.89	4346	KIAA1279
chr1	68197842	68205947	Normal,TNBC-Basal,TNBC-ClaudinLow	2.89	51035	GADD45A
chr1	159208422	159210499	Normal	2.89	34412	ACKR1
chr5	31853052	31856518	Normal,LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow	2.88	55755	PDZD2
chr4	75082603	75086548	Normal,TNBC-ClaudinLow	2.88	60747	MTHFD2L
chr21	22609842	22613653	LuminaB,LuminaA	2.88	-46074	RNU6-67P
chr2	191216594	191225726	Normal	2.88	12965	INPP1
chr2	178861787	178864272	Normal	2.88	74453	PDE11A
chr2	160946918	160949823	Normal	2.88	-29244	PLA2R1
chr2	122352466	122355420	TNBC-ClaudinLow	2.88	53109	CLASP1
chr19	37827915	37831071	LuminaB	2.88	3914	HKR1
chr13	63763957	63765742	TNBC-ClaudinLow	2.88	137378	LINC00376
chr13	56998040	56999435	Normal	2.88	-716314	PRR20D
chr13	35506836	35509271	LuminaB	2.88	-8370	NBEA
chr12	93177383	93180118	Normal	2.88	48486	PLEKHG7
chr10	64751042	64753783	Normal,TNBC-ClaudinLow	2.88	-140594	NRBF2
chr10	60347397	60351860	Normal	2.88	76725	BICC1
chr10	115910208	115912572	Normal	2.88	22548	MIR2110
chr1	59948555	59954308	Normal,TNBC-ClaudinLow	2.88	-29869	FGGY
chr1	224139335	224141637	TNBC-ClaudinLow	2.88	-106812	TP53BP2
chr1	178023508	178031381	Normal,TNBC-Basal,TNBC-ClaudinLow	2.88	-20302	LOC730102
chr9	69108462	69109271	Normal	2.87	38988	PGM5P2
chr8	30396135	30399818	Normal	2.87	-98140	SMIM18
chr8	146060071	146063468	Normal,TNBC-ClaudinLow	2.87	8867	ZNF7
chr7	134343989	134348048	Normal	2.87	14488	BPGM
chr6	57915343	57916239	Normal	2.87	371933	GUSBP4
chr4	36004976	36009267	Normal,TNBC-ClaudinLow	2.87	-238616	LOC439933
chr4	32111369	32114780	Normal	2.87	114074	LOC102723828
chr4	186651401	186652953	Normal	2.87	44889	SORBS2
chr4	124620637	124622523	Normal	2.87	47641	LINC01091
chr4	110360817	110366195	Normal	2.87	-8533	SEC24B-AS1
chr18	20889658	20894231	Normal	2.87	125981	TMEM241
chr17	63356107	63362981	LuminaB,HER2	2.87	198196	AXIN2
chr17	2826954	2830622	Normal	2.87	40401	LOC101927911
chr11	104439947	104442717	Normal	2.87	38698	LOC102723895
chr10	30879331	30887104	LuminaB	2.87	35430	LYZL2
chr10	112111634	112118666	Normal,TNBC-ClaudinLow	2.87	-50443	SMNDC1
chr9	110709950	110712516	TNBC-ClaudinLow	2.86	-459186	KLF4
chr8	97431052	97433300	LuminaB	2.86	-32510	LOC102724804
chr8	59739995	59747783	Normal,TNBC-ClaudinLow	2.86	-171485	NSMAF
chr4	119264256	119275277	Normal,TNBC-Basal,TNBC-ClaudinLow	2.86	4156	PRSS12
chr20	48339553	48348526	TNBC-Basal,HER2	2.86	-13618	B4GALT5
chr2	33587434	33590396	Normal	2.86	-72500	RASGRP3
chr2	161430256	161433762	Normal	2.86	-81691	RBMS1
chr17	79044323	79047798	Normal,TNBC-Basal	2.86	37114	BAIAP2
chr12	62641359	62646534	Normal	2.86	-10174	USP15
chr1	178234945	178241761	Normal,TNBC-Basal,TNBC-ClaudinLow	2.86	-72252	RASAL2
chr5	92683913	92687052	Normal	2.85	221567	NR2F1-AS1
chr5	125442631	125445144	Normal	2.85	-71382	LOC102546228
chr4	56340789	56342763	Normal,TNBC-ClaudinLow	2.85	70323	CLOCK
chr3	31951929	31953790	Normal	2.85	-70406	ZNF860
chr3	154999325	155003620	Normal,TNBC-Basal	2.85	10017	LOC100507537
chr15	92113993	92116858	LuminaB,LuminaA	2.85	108857	LOC101926928
chr12	97906290	97908970	LuminaB	2.85	21944	MIR1251
chr10	78135126	78136742	Normal	2.85	-511867	KCNMA1-AS1
chr1	217597165	217599692	LuminaB,LuminaA	2.85	206016	GPATCH2
chr7	66099060	66101873	TNBC-ClaudinLow	2.84	6599	KCTD7
chr6	75065011	75068058	Normal	2.84	287368	LOC101928516
chr5	102760317	102763910	LuminaB	2.84	115573	LOC102467212
chr4	37694048	37696421	Normal,TNBC-ClaudinLow	2.84	-7235	RELL1
chr4	139195938	139198426	Normal	2.84	-33679	SLC7A11
chr3	188388987	188393361	Normal,TNBC-Basal	2.84	-104720	LPP-AS1
chr20	3336048	3338467	HER2	2.84	51052	C20orf194
chr2	23657064	23659544	TNBC-Basal	2.84	50007	KLHL29
chr19	382516	383841	Normal,TNBC-ClaudinLow	2.84	-7165	THEG
chr18	52441050	52445933	Normal,TNBC-ClaudinLow,HER2	2.84	-52216	RAB27B
chr15	38116656	38117966	TNBC-ClaudinLow	2.84	-110145	TMCO5A
chr13	40779008	40782024	Normal	2.84	14123	LINC00548
chr13	31018932	31020980	TNBC-ClaudinLow	2.84	20125	HMGB1
chr12	66155998	66161369	Normal	2.84	-59556	HMGA2
chr1	157996575	158001079	Normal	2.84	35765	KIRREL
chrX	15974050	15976043	Normal	2.83	-101909	AP1S2
chr9	109682205	109684635	Normal,TNBC-Basal	2.83	58043	ZNF462
chr7	45836066	45837373	TNBC-ClaudinLow	2.83	-28102	SEPT7P2
chr5	90233878	90237852	Normal	2.83	374354	LUCAT1
chr5	53866322	53867815	TNBC-Basal	2.83	53476	SNX18
chr5	127397065	127399411	Normal,TNBC-Basal	2.83	20528	LINC01184
chr3	197380927	197381384	LuminaB,LuminaA,TNBC-Basal,HER2	2.83	20292	MIR922
chr21	40377709	40380973	TNBC-Basal	2.83	-29641	LOC101928435
chr2	200295837	200297941	TNBC-ClaudinLow	2.83	25930	SATB2
chr14	75405519	75408735	Normal,TNBC-ClaudinLow	2.83	15340	PGF
chr14	34457846	34460351	TNBC-ClaudinLow	2.83	-38814	EGLN3
chr12	80011509	80014220	Normal	2.83	71926	PAWR
chr12	130037532	130038574	TNBC-ClaudinLow	2.83	344908	LOC101927735
chr10	99181693	99183961	Normal,TNBC-ClaudinLow	2.83	-3199	PGAM1
chr10	98129281	98130662	TNBC-ClaudinLow	2.83	-10849	OPALIN
chrX	53503115	53504654	Normal	2.82	-42561	HSD17B10
chrX	16486941	16491309	LuminaB,LuminaA	2.82	-179155	S100G
chr8	95539413	95542887	LuminaB,LuminaA	2.82	24596	KIAA1429
chr8	73018263	73021306	Normal,TNBC-ClaudinLow,HER2	2.82	-31965	TRPA1
chr4	168117189	168118492	Normal	2.82	37737	SPOCK3
chr3	131601730	131604125	TNBC-ClaudinLow	2.82	101848	MIR5704
chr2	206570170	206573218	Normal,TNBC-ClaudinLow	2.82	24471	NRP2
chr2	178338278	178340682	Normal	2.82	78044	TTC30B
chr13	46013728	46016780	Normal	2.82	-22664	SLC25A30
chr11	129115944	129122075	Normal,TNBC-ClaudinLow	2.82	-56916	ARHGAP32
chr6	38250217	38253473	TNBC-ClaudinLow	2.81	311998	BTBD9
chr4	146840430	146842623	Normal	2.81	18081	ZNF827
chr2	54825223	54831895	Normal,TNBC-Basal	2.81	43029	SPTBN1
chr2	155710380	155713957	LuminaB,LuminaA	2.81	157076	KCNJ3
chrX	42834880	42839267	Normal	2.8	-199169	LOC101927501
chr8	17598973	17602214	Normal	2.8	-20509	MTUS1
chr7	42257717	42260457	Normal	2.8	17531	GLI3
chr6	54145717	54152027	Normal,TNBC-ClaudinLow	2.8	-24330	TINAG
chr5	177773504	177779312	TNBC-Basal	2.8	-116585	PHYKPL
chr4	89272259	89274324	Normal	2.8	-26599	HERC6
chr4	21769940	21772514	Normal,TNBC-ClaudinLow	2.8	-71909	KCNIP4
chr4	119945565	119949795	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	2.8	-109258	MYOZ2
chr22	41992554	41995915	Normal	2.8	-8363	PMM1
chr2	171593074	171597232	Normal,TNBC-Basal,TNBC-ClaudinLow	2.8	23297	SP5
chr15	81220819	81223361	Normal	2.8	60129	MESDC2
chr12	122580463	122585725	Normal,LuminaB	2.8	66461	MLXIP
chr7	23131866	23134423	Normal	2.79	12178	KLHL7-AS1
chr4	173902176	173905126	Normal	2.79	-186252	GALNT7
chr22	40633497	40637926	Normal,TNBC-Basal,TNBC-ClaudinLow	2.79	61783	TNRC6B
chr2	37861416	37867363	Normal,TNBC-ClaudinLow	2.79	34953	CDC42EP3
chr2	227751700	227754606	Normal	2.79	52483	RHBDD1
chr17	4760476	4764814	Normal	2.79	26011	MINK1
chr16	68458971	68470525	LuminaB,LuminaA	2.79	17661	SMPD3
chr12	77506844	77510299	TNBC-ClaudinLow	2.79	-49211	E2F7
chr12	31255303	31258368	LuminaB,LuminaA,TNBC-Basal,HER2	2.79	-30054	DDX11-AS1
chr12	122379174	122381295	Normal	2.79	23772	WDR66
chr10	108316400	108322117	Normal	2.79	605208	SORCS1
chr1	70555371	70557352	TNBC-ClaudinLow	2.79	115000	LRRC40
chr1	215161731	215167601	Normal,TNBC-ClaudinLow	2.79	-14218	KCNK2
chr8	128507976	128515390	Normal,HER2	2.78	-17299	CASC8
chr6	18584121	18586878	TNBC-ClaudinLow	2.78	13485	MIR548A1
chr6	145860550	145862078	Normal	2.78	-194690	LOC100507557
chr5	24221788	24225572	Normal	2.78	421405	CDH10
chr4	25568957	25571693	LuminaA	2.78	-87109	SLC34A2
chr21	18790316	18792826	TNBC-ClaudinLow	2.78	-19636	LINC01549
chr2	138815935	138820533	Normal	2.78	96427	HNMT
chr16	21622131	21624589	Normal	2.78	12564	METTL9
chr14	88746447	88749736	HER2	2.78	-10836	KCNK10
chr13	44378004	44380776	Normal,TNBC-ClaudinLow	2.78	-18274	ENOX1
chr12	47308203	47311630	Normal	2.78	-90136	SLC38A4
chrX	18760489	18761891	TNBC-ClaudinLow	2.77	-50384	PPEF1-AS1
chr8	16620640	16622508	Normal,TNBC-ClaudinLow	2.77	238100	FGF20
chr6	2817179	2821383	Normal,TNBC-Basal,TNBC-ClaudinLow	2.77	23002	SERPINB1
chr4	90615400	90616705	Normal	2.77	-141499	SNCA-AS1
chr4	54373236	54375213	TNBC-ClaudinLow	2.77	7981	LNX1-AS1
chr4	159364396	159368897	Normal	2.77	-76219	RXFP1
chr21	32652805	32658591	Normal,TNBC-ClaudinLow	2.77	-244903	KRTAP19-8
chr18	9594066	9596814	Normal	2.77	19165	PPP4R1
chr18	60238644	60241063	Normal	2.77	49196	ZCCHC2
chr16	80191333	80193932	Normal	2.77	363487	LOC101928248
chr16	72280498	72283526	Normal	2.77	-75663	PMFBP1
chr14	67440319	67442009	Normal	2.77	-214945	FAM71D
chr11	6711244	6717935	Normal,TNBC-ClaudinLow	2.77	-9957	MRPL17
chr1	64094993	64097658	Normal	2.77	7439	PGM1
chr1	40501380	40503641	Normal	2.77	-3744	CAP1
chr9	85627551	85630299	Normal	2.76	49118	RASEF
chr7	154978826	154983236	TNBC-ClaudinLow	2.76	-108454	INSIG1
chr6	144642398	144644728	LuminaB	2.76	30691	UTRN
chr4	69280487	69283998	Normal	2.76	-30924	TMPRSS11E
chr3	55545237	55547764	Normal	2.76	-24830	WNT5A
chr14	91816725	91818072	TNBC-ClaudinLow	2.76	66790	CCDC88C
chr14	87264035	87267155	Normal	2.76	-106526	LOC283585
chr1	209615973	209618645	Normal	2.76	11832	MIR205
chr1	188737534	188740433	LuminaB,LuminaA	2.76	0	none
chr8	39017522	39019598	Normal	2.75	53511	ADAM32
chr7	65612065	65615012	Normal,TNBC-ClaudinLow	2.75	33734	CRCP
chr6	46788457	46790583	Normal	2.75	28427	MEP1A
chr5	90183328	90186280	Normal	2.75	330188	GPR98
chr5	58488144	58491517	Normal	2.75	82115	PDE4D
chr5	5190342	5193457	TNBC-ClaudinLow	2.75	51457	ADAMTS16
chr4	74747835	74752618	Normal,TNBC-ClaudinLow	2.75	15118	CXCL1
chr3	38874862	38879410	Normal,TNBC-ClaudinLow	2.75	-41635	SCN10A
chr3	188202361	188205213	Normal	2.75	82667	LPP-AS1
chr20	43203879	43206837	Normal,TNBC-ClaudinLow	2.75	-5831	PKIG
chr11	18770507	18772397	Normal,TNBC-ClaudinLow	2.75	-23675	IGSF22
chr11	122653927	122656801	Normal	2.75	-53890	CRTAM
chr11	117150759	117153463	Normal,TNBC-ClaudinLow	2.75	-9950	BACE1-AS
chr1	1890909	1892595	TNBC-ClaudinLow	2.75	-41012	TMEM52
chr1	183166609	183169775	Normal	2.75	13019	LAMC2
chr9	80902815	80904753	Normal	2.74	-8206	PSAT1
chr7	80400908	80406467	Normal	2.74	127719	CD36
chr5	55571775	55579714	TNBC-ClaudinLow	2.74	-46558	ANKRD55
chr4	15690152	15698422	Normal,TNBC-ClaudinLow	2.74	-10285	BST1
chr2	138862274	138866239	Normal	2.74	142449	HNMT
chr18	61116104	61117547	Normal	2.74	-27073	VPS4B
chr17	2465794	2469590	Normal,TNBC-Basal,TNBC-ClaudinLow	2.74	-29230	PAFAH1B1
chr14	45239274	45242298	LuminaB,LuminaA	2.74	-125720	C14orf28
chr12	99028619	99031359	Normal	2.74	8840	IKBIP
chr12	25920144	25925237	Normal	2.74	104322	MIR4302
chr10	75238737	75241409	TNBC-ClaudinLow	2.74	15709	PPP3CB
chr1	244101635	244103784	TNBC-ClaudinLow	2.74	22006	LOC339529
chrX	34892626	34894547	Normal	2.73	-67326	FAM47B
chrX	19789648	19791577	TNBC-ClaudinLow	2.73	27305	SH3KBP1
chr8	97743445	97745060	Normal	2.73	86798	CPQ
chr8	117770403	117773073	HER2	2.73	-3676	EIF3H
chr7	140751923	140754623	TNBC-ClaudinLow	2.73	-20758	TMEM178B
chr7	130909415	130911828	TNBC-ClaudinLow	2.73	101917	MKLN1-AS
chr6	146008627	146011444	Normal	2.73	-45969	LOC100507557
chr6	138775255	138778230	Normal,TNBC-Basal	2.73	-20311	MIR3145
chr5	141036802	141038672	TNBC-ClaudinLow	2.73	-6751	FCHSD1
chr4	151599630	151601814	Normal	2.73	97646	MAB21L2
chr3	144041126	144044283	LuminaB,LuminaA	2.73	350538	C3orf58
chr2	234940089	234942310	Normal	2.73	-18146	SPP2
chr2	118612718	118615546	Normal,TNBC-ClaudinLow	2.73	41878	DDX18
chr12	110738987	110743824	Normal	2.73	22374	ATP2A2
chr10	98355148	98357543	LuminaB	2.73	-9536	TM9SF3
chr1	26283686	26286356	TNBC-ClaudinLow	2.73	39627	PAFAH2
chr1	168658506	168661004	Normal	2.73	38687	DPT
chr1	168444823	168447392	Normal	2.73	18775	LOC101928565
chr9	73080863	73082985	Normal,TNBC-ClaudinLow	2.72	-52351	KLF9
chr6	116684122	116686167	Normal,TNBC-ClaudinLow	2.72	-6965	DSE
chr5	66389340	66392252	Normal	2.72	90349	MAST4
chr5	176814323	176819282	HER2	2.72	5371	SLC34A1
chr5	147293089	147294099	Normal	2.72	-7493	C5orf46
chr4	41432172	41436950	TNBC-Basal,TNBC-ClaudinLow	2.72	71760	LIMCH1
chr3	43430464	43432445	Normal	2.72	-38000	SNRK-AS1
chr3	151866680	151869724	Normal	2.72	-117626	MBNL1
chr2	69104562	69108176	TNBC-ClaudinLow	2.72	-7720	BMP10
chr2	230664729	230666366	Normal	2.72	79297	TRIP12
chr18	77557548	77559435	TNBC-ClaudinLow	2.72	-65176	KCNG2
chr18	61483931	61486722	Normal	2.72	40316	SERPINB7
chr17	6477630	6480128	Normal	2.72	-19002	PITPNM3
chr16	85318893	85325932	LuminaB,LuminaA	2.72	5849	LINC00311
chr15	30048587	30050431	Normal	2.72	64242	TJP1
chr12	96025223	96034844	Normal,TNBC-Basal,HER2	2.72	-12997	PGAM1P5
chr12	47279334	47281856	Normal	2.72	-60815	SLC38A4
chr12	117944360	117946044	LuminaB	2.72	-145595	NOS1
chr12	111834060	111835890	Normal,TNBC-ClaudinLow	2.72	-8776	SH2B3
chr11	119379827	119381391	TNBC-ClaudinLow	2.72	-86363	THY1
chr1	6913349	6914994	Normal	2.72	68788	CAMTA1
chr9	111201087	111208809	Normal,TNBC-ClaudinLow,HER2	2.71	413327	ACTL7B
chr7	130550900	130554465	Normal	2.71	8887	MIR29A
chr5	49726263	49727642	Normal	2.71	10282	EMB
chr5	163132133	163134594	Normal	2.71	200830	MAT2B
chr5	107630574	107632693	Normal	2.71	86166	FBXL17
chr2	99175914	99177862	TNBC-ClaudinLow	2.71	48093	COA5
chr19	52601991	52604258	TNBC-ClaudinLow	2.71	-4106	ZNF841
chr19	46962963	46966141	Normal	2.71	10268	PNMAL1
chr18	8749165	8753931	Normal	2.71	34180	MTCL1
chr13	50549709	50551590	Normal	2.71	19988	MIR3613
chr12	18317814	18319645	Normal	2.71	-75602	RERGL
chr11	14419003	14420817	Normal	2.71	-33858	RRAS2
chr11	128629245	128630619	TNBC-ClaudinLow	2.71	-64014	SENCR
chr10	44805480	44807202	LuminaB,LuminaA	2.71	18144	LOC100130539
chr1	90421921	90423939	TNBC-Basal	2.71	37595	GEMIN8P4
chr8	16683321	16684748	Normal,TNBC-ClaudinLow	2.7	175640	FGF20
chr5	142532267	142536382	Normal,TNBC-Basal,TNBC-ClaudinLow	2.7	248930	NR3C1
chr4	54946793	54952638	Normal,TNBC-ClaudinLow	2.7	-16532	GSX2
chr4	112476126	112479371	Normal	2.7	-588804	C4orf32
chr4	104417289	104421457	Normal	2.7	73175	LOC101929448
chr20	18144111	18145974	Normal	2.7	19300	CSRP2BP
chr2	138835379	138840449	Normal	2.7	116107	HNMT
chr19	56783058	56786856	Normal	2.7	-45298	ZSCAN5A
chr12	1635715	1638117	Normal	2.7	27260	LINC00942
chr11	70840127	70842377	Normal	2.7	94590	SHANK2
chr10	35027874	35030123	Normal	2.7	75255	PARD3
chr1	60096389	60098562	Normal	2.7	101493	MIR4711
chr1	10017394	10020641	TNBC-ClaudinLow	2.7	15532	NMNAT1
chr9	75289488	75291467	Normal	2.69	153761	TMC1
chr6	112552387	112556124	Normal,TNBC-Basal	2.69	-3541	LOC101927640
chr3	106786824	106789492	Normal,TNBC-ClaudinLow	2.69	171327	LINC00882
chr21	28951620	28953176	Normal	2.69	-142299	LINC00113
chr2	173994845	173996540	Normal	2.69	55128	ZAK
chr2	166476896	166479021	Normal	2.69	49113	CSRNP3
chr17	47422290	47425453	LuminaB	2.69	-14655	LOC102724596
chr12	96622177	96625138	Normal	2.69	35451	ELK3
chr12	94491135	94496659	Normal,TNBC-ClaudinLow	2.69	-48601	PLXNC1
chr12	107854430	107856418	Normal	2.69	-119209	BTBD11
chr11	8752836	8755907	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	2.69	-35953	LOC102724784
chr11	17704026	17706631	TNBC-ClaudinLow	2.69	-35781	MYOD1
chr1	27976162	27978572	Normal,TNBC-Basal,TNBC-ClaudinLow	2.69	-15640	FGR
chr8	140999910	141002738	Normal	2.68	-286025	KCNK9
chr6	152895899	152898512	Normal	2.68	60781	SYNE1
chr6	124245854	124247774	Normal	2.68	121824	NKAIN2
chr5	94027541	94030431	Normal	2.68	74596	ANKRD32
chr5	58932880	58935114	Normal	2.68	-51673	PDE4D
chr5	178115365	178118417	Normal,TNBC-ClaudinLow	2.68	40812	ZNF354A
chr4	74454469	74456500	Normal	2.68	30803	RASSF6
chr4	21781160	21783284	TNBC-ClaudinLow	2.68	72589	KCNIP4-IT1
chr4	17550556	17551957	Normal,TNBC-ClaudinLow	2.68	-27670	LAP3
chr2	57599045	57601873	Normal,TNBC-ClaudinLow	2.68	-534326	VRK2
chr14	56737899	56740439	Normal	2.68	154077	PELI2
chr10	33700739	33702957	Normal,TNBC-ClaudinLow	2.68	-78015	NRP1
chr1	61668207	61669506	Normal	2.68	50334	NFIA-AS1
chr1	217832488	217835996	Normal	2.68	29548	SPATA17
chr9	18565800	18567385	Normal	2.67	-6711	MIR3152
chr5	106848327	106851078	Normal	2.67	156894	EFNA5
chr4	77926717	77933158	Normal	2.67	59043	SEPT11
chr4	55881120	55883867	Normal	2.67	109269	KDR
chr3	23304430	23307404	Normal	2.67	61134	UBE2E2
chr21	17058937	17062320	Normal	2.67	-41715	USP25
chr20	5171687	5173686	Normal	2.67	65280	CDS2
chr2	161283303	161287007	Normal	2.67	-20762	MIR4785
chr17	414322	416107	Normal	2.67	-119483	FAM101B
chr16	89218879	89222670	LuminaB,LuminaA	2.67	-4853	LINC00304
chr16	80632237	80634627	TNBC-ClaudinLow	2.67	-26727	LINC01227
chr11	36166933	36174424	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	2.67	139031	MIR3973
chr10	63545084	63548714	Normal,TNBC-ClaudinLow	2.67	-114113	ARID5B
chr1	176001166	176004308	Normal	2.67	-65061	SCARNA3
chrX	11326501	11328276	LuminaB	2.66	15856	AMELX
chr9	38078751	38080687	TNBC-ClaudinLow	2.66	-10509	SHB
chr8	39619910	39622605	LuminaB	2.66	74551	ADAM2
chr8	133902370	133908724	Normal	2.66	26343	TG
chr8	123485185	123489195	Normal,HER2	2.66	219155	LINC01151
chr8	100809720	100816921	Normal	2.66	92922	COX6C
chr7	105951629	105956097	Normal,TNBC-ClaudinLow,HER2	2.66	-28225	NAMPT
chr6	37189071	37191414	LuminaB	2.66	35171	TMEM217
chr6	16215274	16216750	TNBC-ClaudinLow	2.66	-22798	GMPR
chr6	149369203	149371975	Normal,TNBC-ClaudinLow	2.66	-84769	LOC100128176
chr4	39086858	39088307	Normal	2.66	-17937	MIR1273H
chr3	33075709	33078367	Normal,TNBC-ClaudinLow	2.66	61255	TMPPE
chr3	138492511	138495241	Normal	2.66	-15675	PIK3CB
chr22	46172041	46174790	Normal,TNBC-Basal,HER2	2.66	17012	MIR4762
chr20	33721937	33726253	TNBC-ClaudinLow	2.66	11066	EDEM2
chr19	17912598	17915166	LuminaB,LuminaA,TNBC-Basal,HER2	2.66	7964	B3GNT3
chr16	53461747	53465231	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	2.66	-4861	RBL2
chr15	33705530	33708124	Normal	2.66	103665	RYR3
chr12	23245675	23247224	Normal	2.66	-82120	LOC101928441
chr12	130097807	130100692	TNBC-ClaudinLow	2.66	288963	TMEM132D
chr9	557072	559122	Normal,TNBC-Basal	2.65	53403	KANK1
chr7	28145181	28149232	TNBC-Basal	2.65	-72869	JAZF1-AS1
chr7	26930634	26932402	Normal	2.65	-27177	SKAP2
chr7	1928549	1930425	TNBC-ClaudinLow	2.65	-45598	MIR4655
chr4	138439472	138441976	Normal	2.65	12928	PCDH18
chr3	152099104	152108214	Normal,TNBC-Basal	2.65	-44880	TMEM14E
chr3	121012900	121016884	Normal	2.65	249961	POLQ
chr17	73321107	73323523	LuminaB,LuminaA	2.65	-36785	SLC25A19
chr17	5214959	5219208	LuminaB,LuminaA	2.65	31526	RABEP1
chr12	94568953	94570953	TNBC-ClaudinLow	2.65	27455	PLXNC1
chr12	76842174	76846019	Normal,TNBC-ClaudinLow	2.65	-101874	BBS10
chr12	76516162	76519293	Normal,TNBC-ClaudinLow	2.65	-38989	NAP1L1
chr10	45358702	45361468	LuminaB,LuminaA	2.65	-46678	TMEM72
chr1	40107825	40109726	TNBC-ClaudinLow	2.65	-3427	HEYL
chr6	21032828	21035368	Normal,TNBC-Basal,TNBC-ClaudinLow	2.64	478025	LINC00581
chr5	82544483	82545924	Normal	2.64	171887	XRCC4
chr4	169724168	169726186	Normal	2.64	-27978	PALLD
chr3	89070205	89072204	Normal	2.64	-85469	EPHA3
chr2	219092298	219096520	Normal,TNBC-ClaudinLow	2.64	12290	ARPC2
chr2	202295635	202298545	Normal,TNBC-ClaudinLow	2.64	19229	TRAK2
chr2	154842246	154844196	TNBC-ClaudinLow	2.64	42315	GALNT13
chr17	63537071	63541299	LuminaB,LuminaA,HER2	2.64	18555	AXIN2
chr17	35747408	35750417	Normal	2.64	15928	C17orf78
chr13	36086214	36087016	Normal	2.64	35730	NBEA
chr12	46500619	46502548	Normal	2.64	-117182	SCAF11
chr10	21278103	21285827	Normal	2.64	-95434	NEBL
chr1	45388792	45393238	Normal,TNBC-ClaudinLow	2.64	61379	EIF2B3
chr1	44788532	44796815	Normal	2.64	28278	ERI3
chrX	40597130	40599720	LuminaB	2.63	-3621	MED14
chrX	23136043	23138021	LuminaB	2.63	118955	DDX53
chr9	101118339	101121415	Normal	2.63	-101874	TBC1D2
chr8	74477221	74481576	Normal	2.63	147090	STAU2-AS1
chr7	48091566	48093901	TNBC-ClaudinLow	2.63	17626	C7orf57
chr7	151045910	151048036	TNBC-ClaudinLow	2.63	8127	NUB1
chr7	126367527	126369252	Normal,TNBC-ClaudinLow	2.63	329849	MIR592
chr4	27181053	27183452	LuminaB	2.63	-36848	LOC101929199
chr4	187728998	187731104	Normal	2.63	-85064	FAT1
chr4	139108614	139111241	Normal	2.63	53576	SLC7A11
chr3	77611056	77613671	LuminaA	2.63	465201	ROBO2
chr20	4349369	4351554	Normal,TNBC-ClaudinLow	2.63	-120802	ADRA1D
chr18	36338517	36340659	Normal	2.63	-917096	MIR5583-1
chr16	14430638	14432291	LuminaB	2.63	28323	MIR365A
chr15	68983803	68985188	LuminaB,LuminaA	2.63	60169	CORO2B
chr15	30237053	30239730	Normal	2.63	22611	TJP1
chr14	96555531	96574241	LuminaB,LuminaA,HER2	2.63	59226	C14orf132
chr12	76976892	76978571	Normal,TNBC-ClaudinLow	2.63	-24142	OSBPL8
chr10	129685966	129690046	Normal,TNBC-ClaudinLow	2.63	3205	CLRN3
chr10	127737556	127739610	Normal	2.63	-76741	FANK1-AS1
chr9	96872453	96874294	Normal	2.62	26663	PTPDC1
chr9	94706478	94709716	LuminaA	2.62	4347	ROR2
chr7	32147504	32149905	TNBC-Basal	2.62	-37656	PDE1C
chr6	135678750	135681427	Normal,TNBC-ClaudinLow	2.62	138815	AHI1
chr4	77479722	77496331	Normal,LuminaB,LuminaA,HER2	2.62	-6694	MIR4450
chr3	105541187	105544363	Normal,TNBC-ClaudinLow	2.62	45112	CBLB
chr22	40057637	40062201	HER2	2.62	93162	CACNA1I
chr21	30704170	30706475	Normal,TNBC-ClaudinLow	2.62	27798	BACH1
chr2	39721068	39723967	TNBC-ClaudinLow	2.62	57961	LOC728730
chr15	38327091	38329625	Normal,TNBC-ClaudinLow	2.62	-4235	LOC101928227
chr13	76866672	76868927	Normal	2.62	416778	LMO7DN-IT1
chr10	4739348	4741508	Normal	2.62	-20166	LINC00704
chr1	9238540	9243959	Normal,LuminaB,LuminaA	2.62	-29413	MIR34A
chr1	81391524	81392908	TNBC-ClaudinLow	2.62	285245	LOC101927412
chr1	203618249	203620980	Normal,LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow	2.62	23700	ATP2B4
chr1	202068074	202089740	LuminaB,LuminaA,TNBC-Basal,HER2	2.62	-13121	GPR37L1
chr1	160606733	160608745	TNBC-ClaudinLow	2.62	9362	SLAMF1
chr1	121327728	121330639	TNBC-ClaudinLow	2.62	68274	EMBP1
chrX	143697508	143698806	Normal	2.61	-630949	SPANXN1
chr9	36543272	36544552	Normal	2.61	-28946	MELK
chr8	116325546	116326869	HER2	2.61	354032	TRPS1
chr7	99359854	99361857	Normal	2.61	20956	CYP3A4
chr7	13667205	13669279	TNBC-ClaudinLow	2.61	357897	ETV1
chr6	65482827	65490059	LuminaB,LuminaA	2.61	-524867	LOC441155
chr5	130713572	130716965	Normal,TNBC-ClaudinLow	2.61	115567	CDC42SE2
chr5	100998245	101000557	LuminaB,LuminaA	2.61	632852	SLCO4C1
chr4	75571958	75577192	LuminaB	2.61	93985	AREG
chr4	157596813	157599618	Normal	2.61	294331	PDGFC
chr2	9676749	9680358	Normal	2.61	17364	ADAM17
chr18	57540582	57542558	Normal,TNBC-ClaudinLow	2.61	-25621	PMAIP1
chr17	47446826	47449916	LuminaB,LuminaA	2.61	-8536	ZNF652
chr17	27696615	27697626	LuminaB	2.61	-20559	MIR4523
chr17	27103036	27105661	Normal	2.61	33326	TRAF4
chr17	20819231	20820489	Normal	2.61	-20407	CCDC144NL
chr12	93983668	93989721	Normal,TNBC-ClaudinLow	2.61	20393	SOCS2
chr1	183924805	183927662	Normal,TNBC-ClaudinLow	2.61	80630	COLGALT2
chr1	120459158	120461067	Normal	2.61	-20965	ADAM30
chr8	58735453	58737542	LuminaB	2.6	-170615	FAM110B
chr7	113262116	113264112	Normal	2.6	295968	PPP1R3A
chr4	97022629	97025074	Normal	2.6	262613	PDHA2
chr4	56368559	56370601	Normal,TNBC-ClaudinLow	2.6	42519	CLOCK
chr3	58502769	58517817	LuminaB	2.6	12636	ACOX2
chr3	188250254	188253107	Normal	2.6	34774	LPP-AS1
chr20	38450557	38453095	Normal	2.6	-181276	LINC01370
chr2	62197435	62199542	Normal,TNBC-Basal	2.6	65686	COMMD1
chr2	227273549	227278972	Normal,TNBC-ClaudinLow,HER2	2.6	247249	MIR5702
chr2	201020593	201021529	Normal,TNBC-ClaudinLow	2.6	-149542	SPATS2L
chr2	12470325	12472112	TNBC-ClaudinLow	2.6	323977	LOC100506457
chr2	112986098	112988060	Normal	2.6	25585	ZC3H8
chr18	73256384	73257826	Normal	2.6	-117516	SMIM21
chr10	71633411	71635784	TNBC-ClaudinLow	2.6	72954	COL13A1
chr10	112423965	112425910	Normal,TNBC-ClaudinLow	2.6	20783	RBM20
chrX	52881148	52882891	TNBC-ClaudinLow	2.59	14313	XAGE3
chrX	16039741	16043786	Normal,TNBC-ClaudinLow	2.59	-99660	GRPR
chr8	10675143	10678351	TNBC-ClaudinLow	2.59	6206	MIR1322
chr6	109541366	109543130	LuminaB	2.59	-15568	LOC100996634
chr5	9711775	9714167	Normal	2.59	-82508	TAS2R1
chr4	89857651	89860486	Normal	2.59	-114556	FAM13A
chr4	34194668	34196408	Normal,TNBC-ClaudinLow	2.59	-154023	LOC101928622
chr3	104625407	104629089	Normal,TNBC-ClaudinLow	2.59	-458308	ALCAM
chr19	8145979	8147731	TNBC-Basal,TNBC-ClaudinLow	2.59	29210	CCL25
chr19	1324407	1326173	Normal,TNBC-ClaudinLow	2.59	-29685	MUM1
chr17	63582473	63585923	LuminaB,LuminaA	2.59	-26458	AXIN2
chr17	46237006	46239085	LuminaB,LuminaA	2.59	-4172	MIR1203
chr14	100871810	100876300	Normal,TNBC-ClaudinLow	2.59	31223	WDR25
chr12	32638034	32640539	Normal	2.59	-15754	FGD4
chr12	24907115	24909399	Normal,TNBC-ClaudinLow	2.59	147065	BCAT1
chr11	43889644	43891566	Normal,TNBC-ClaudinLow	2.59	-11751	ALKBH3
chr11	120483131	120484382	TNBC-ClaudinLow	2.59	48562	GRIK4
chr7	42232063	42234514	Normal	2.58	43330	GLI3
chr7	141712055	141714431	Normal	2.58	17565	MGAM
chr5	95897678	95900105	Normal	2.58	-98849	CAST
chr17	65248413	65250843	Normal	2.58	-8309	HELZ
chr17	40001807	40003355	TNBC-ClaudinLow	2.58	8539	KLHL10
chr16	75074837	75083344	LuminaB,LuminaA,TNBC-Basal,HER2	2.58	46176	ZNRF1
chr15	95219918	95221723	Normal	2.58	-177771	LOC440311
chr15	73867271	73869524	Normal	2.58	-6513	NPTN-IT1
chr11	92711378	92713897	Normal	2.58	9849	MTNR1B
chr1	173117420	173120458	TNBC-ClaudinLow	2.58	55758	TNFSF4
chr1	121315414	121316638	Normal	2.58	55117	EMBP1
chrX	64893257	64894939	Normal,TNBC-Basal,TNBC-ClaudinLow	2.57	6588	MSN
chr8	13353443	13356270	Normal,TNBC-ClaudinLow	2.57	17573	DLC1
chr7	19065945	19067675	Normal	2.57	90485	TWIST1
chr7	151540633	151542927	TNBC-ClaudinLow	2.57	-29823	PRKAG2
chr6	582261	584107	Normal	2.57	73780	HUS1B
chr5	54963311	54965682	Normal	2.57	24385	SLC38A9
chr5	146101452	146102570	Normal	2.57	156337	PPP2R2B
chr3	86977820	86988261	Normal	2.57	57217	VGLL3
chr3	51654412	51656901	Normal	2.57	-49534	TEX264
chr22	33147841	33152033	TNBC-Basal,TNBC-ClaudinLow	2.57	-46864	TIMP3
chr2	161692592	161694747	Normal	2.57	-299796	TANK
chr2	146517820	146519268	Normal	2.57	-826080	PABPC1P2
chr18	41888275	41890272	Normal	2.57	222389	LINC01478
chr18	25417894	25420972	Normal,TNBC-ClaudinLow	2.57	338012	CDH2
chr17	20103647	20113318	Normal,HER2	2.57	49176	SPECC1
chr12	130154255	130155191	TNBC-ClaudinLow	2.57	233489	TMEM132D
chr12	116601417	116604181	Normal	2.57	-16340	MIR620
chr10	121528488	121531307	Normal,TNBC-ClaudinLow	2.57	44339	INPP5F
chr10	100645707	100646995	TNBC-ClaudinLow	2.57	349281	HPSE2
chr1	61823582	61825663	Normal	2.57	-105432	NFIA-AS1
chr1	100510661	100518521	Normal,TNBC-Basal	2.57	10803	HIAT1
chr8	42797026	42799147	Normal	2.56	46054	HOOK3
chr6	112563673	112567718	TNBC-Basal	2.56	7899	LOC101927640
chr5	159906006	159908175	TNBC-ClaudinLow	2.56	-5268	MIR146A
chr5	150587318	150592421	Normal	2.56	13785	CCDC69
chr4	28260278	28262115	LuminaB,LuminaA	2.56	-560007	MIR4275
chr3	65818888	65821575	Normal,TNBC-ClaudinLow	2.56	-59259	MAGI1-AS1
chr3	185480228	185490303	Normal,TNBC-Basal	2.56	53654	IGF2BP2
chr2	40943241	40945742	Normal,TNBC-ClaudinLow	2.56	-204916	SLC8A1
chr2	212863746	212866902	LuminaA	2.56	425760	MIR548F2
chr2	207871872	207874302	TNBC-Basal	2.56	68810	CPO
chr2	202335132	202337365	Normal	2.56	19857	STRADB
chr17	40965906	40968301	Normal,TNBC-ClaudinLow	2.56	8858	MIR6781
chr11	95732151	95734097	TNBC-Basal	2.56	-75753	MTMR2
chr10	23137581	23139463	Normal	2.56	-78430	ARMC3
chr1	205727161	205728526	LuminaA	2.56	-8471	NUCKS1
chr1	109903200	109905342	Normal	2.56	31708	SORT1
chrX	39630706	39632556	TNBC-ClaudinLow	2.55	325088	BCOR
chr7	7246430	7248746	Normal	2.55	25343	C1GALT1
chr6	151202348	151204569	Normal	2.55	15990	MTHFD1L
chr5	10884787	10886320	TNBC-ClaudinLow	2.55	-124166	DAP
chr4	26688303	26690835	Normal,TNBC-ClaudinLow	2.55	104024	TBC1D19
chr4	165358802	165364348	Normal	2.55	-57168	MARCH1
chr4	13945015	13946567	Normal	2.55	-167800	LINC01085
chr4	122279298	122280875	Normal	2.55	22095	QRFPR
chr3	60920013	60922666	Normal,TNBC-ClaudinLow	2.55	315794	FHIT
chr20	45379844	45382498	HER2	2.55	42893	SLC2A10
chr2	242636219	242637728	TNBC-ClaudinLow	2.55	-4482	ING5
chr2	24048959	24052635	Normal	2.55	99187	ATAD2B
chr2	217255620	217257239	TNBC-ClaudinLow	2.55	-19679	MARCH4
chr15	59524362	59525700	Normal	2.55	26017	LDHAL6B
chr12	74730249	74733945	Normal,TNBC-ClaudinLow	2.55	-45686	LOC100507377
chr11	14346044	14348013	Normal	2.55	33003	RRAS2
chr10	11370189	11375336	TNBC-Basal	2.55	13911	CELF2-AS1
chr1	49334319	49335828	Normal	2.55	-92432	BEND5
chr1	219496011	219499618	TNBC-ClaudinLow	2.55	149504	LYPLAL1
chr8	38203847	38207212	Normal	2.54	34261	WHSC1L1
chr7	48458212	48460320	Normal	2.54	248210	ABCA13
chr7	112652982	112655145	Normal	2.54	-18365	LOC101928036
chr6	134237074	134238884	TNBC-ClaudinLow	2.54	27720	TCF21
chr6	119025797	119028266	Normal	2.54	4207	CEP85L
chr3	174851527	174856749	LuminaB,LuminaA	2.54	-21106	NAALADL2-AS3
chr20	54993215	54995135	TNBC-ClaudinLow	2.54	6862	CASS4
chr20	50280134	50284446	HER2	2.54	102618	ATP9A
chr2	25750060	25751803	Normal	2.54	122160	DTNB
chr2	24336592	24339564	Normal	2.54	8073	PFN4
chr16	69513090	69517933	Normal,TNBC-Basal	2.54	57014	CYB5B
chr15	83978128	83982556	Normal,TNBC-Basal	2.54	-26874	BNC1
chr13	74647747	74650657	Normal	2.54	58864	KLF12
chr12	125104315	125112528	Normal,TNBC-Basal,TNBC-ClaudinLow	2.54	-56411	NCOR2
chr10	24991136	24996831	Normal	2.54	18614	ARHGAP21
chr10	114678688	114680701	Normal,TNBC-ClaudinLow	2.54	-30314	TCF7L2
chr1	166153268	166154743	TNBC-ClaudinLow	2.54	-18047	FAM78B
chrX	96643886	96646032	Normal,TNBC-ClaudinLow	2.53	174575	DIAPH2-AS1
chr6	161814979	161815995	Normal,TNBC-ClaudinLow	2.53	-120380	AGPAT4
chr5	97434613	97436939	Normal,TNBC-ClaudinLow	2.53	595377	LINC01340
chr5	57019135	57022220	Normal	2.53	74191	LOC101928505
chr5	136431140	136433737	Normal	2.53	402580	SPOCK1
chr5	131100233	131102297	Normal	2.53	31491	FNIP1
chr5	131082557	131084158	Normal	2.53	49399	FNIP1
chr4	47863340	47867644	Normal	2.53	-25369	CORIN
chr4	44120770	44122458	Normal	2.53	329210	KCTD8
chr4	173107604	173112472	LuminaB,LuminaA	2.53	375464	GALNTL6
chr4	164078114	164079314	Normal	2.53	9359	NAF1
chr3	54075789	54076855	TNBC-Basal	2.53	-80370	CACNA2D3
chr21	43834300	43836325	TNBC-ClaudinLow	2.53	11342	UBASH3A
chr2	181937837	181940502	Normal	2.53	93319	UBE2E3
chr2	177337049	177338809	Normal	2.53	127851	MIR1246
chr17	7174544	7176686	TNBC-ClaudinLow	2.53	-9103	CLDN7
chr13	21652610	21656019	Normal,TNBC-Basal,TNBC-ClaudinLow	2.53	-18592	LATS2
chr11	89072818	89075009	Normal	2.53	149996	NOX4
chr11	12470717	12473566	Normal	2.53	73116	PARVA
chr10	98573799	98575050	Normal,TNBC-ClaudinLow	2.53	-17592	LCOR
chr8	17211945	17212997	Normal,TNBC-ClaudinLow	2.52	58569	MTMR7
chr7	116410675	116425971	TNBC-ClaudinLow,HER2	2.52	-84239	CAPZA2
chr5	142688393	142696762	Normal,TNBC-Basal,TNBC-ClaudinLow	2.52	90677	NR3C1
chr4	91761458	91762767	Normal	2.52	605931	CCSER1
chr4	1555766	1557723	LuminaB,LuminaA	2.52	128974	FAM53A
chr17	45005955	45008022	Normal	2.52	6503	GOSR2
chr13	25357890	25359118	Normal	2.52	20204	RNF17
chr11	8624913	8627348	Normal,TNBC-ClaudinLow	2.52	-10294	STK33
chr11	29794331	29796707	Normal	2.52	243058	KCNA4
chr11	28321399	28328685	LuminaB,LuminaA	2.52	174053	MIR8068
chr10	75586124	75588368	TNBC-ClaudinLow	2.52	-15657	NDST2
chr1	87179631	87180706	Normal	2.52	9916	SH3GLB1
chr1	120315092	120319012	LuminaB,LuminaA,HER2	2.52	-5497	HMGCS2
chrX	38551593	38554283	Normal	2.51	-107746	MID1IP1
chrX	143999572	144001704	Normal,TNBC-ClaudinLow	2.51	-328468	SPANXN1
chr7	112362579	112364606	Normal	2.51	66886	TMEM168
chr6	102834080	102836964	Normal	2.51	988662	GRIK2
chr4	85906223	85908553	TNBC-ClaudinLow	2.51	19418	WDFY3-AS2
chr3	94678004	94682340	LuminaB,LuminaA	2.51	23066	LINC00879
chr3	159428929	159430525	Normal,TNBC-Basal,TNBC-ClaudinLow	2.51	56674	IQCJ-SCHIP1-AS1
chr20	24238647	24240368	LuminaB	2.51	59105	FLJ33581
chr19	38176437	38178520	LuminaB	2.51	5738	ZNF781
chr16	68123846	68127548	Normal,LuminaA	2.51	6429	NFATC3
chr16	55399265	55403710	TNBC-Basal,HER2	2.51	43017	IRX6
chr15	81447862	81451114	Normal	2.51	22845	C15orf26
chr14	24692436	24695150	Normal,TNBC-ClaudinLow	2.51	7783	NEDD8
chr13	99157943	99164203	Normal,TNBC-Basal,TNBC-ClaudinLow	2.51	13306	STK24
chr13	77781169	77783392	Normal	2.51	118897	MYCBP2
chr12	90029566	90031421	Normal	2.51	19351	ATP2B1
chr10	75982453	75985388	Normal,TNBC-ClaudinLow	2.51	47674	ADK
chr1	26237594	26240079	Normal,TNBC-ClaudinLow	2.51	-5468	STMN1
chr7	8034991	8039593	LuminaB,LuminaA,HER2	2.5	-28909	LOC100505921
chr5	160121079	160123056	TNBC-Basal	2.5	157152	ATP10B
chr22	40981036	40986380	Normal	2.5	49015	MKL1
chr18	29956727	29959844	Normal	2.5	92162	GAREM
chr18	29880774	29883543	Normal	2.5	112172	MEP1B
chr17	6689705	6690998	Normal	2.5	10800	FBXO39
chr16	57292377	57295805	Normal,TNBC-Basal,TNBC-ClaudinLow	2.5	15054	ARL2BP
chr16	19417548	19419735	LuminaB,HER2	2.5	-3415	TMC5
chr13	99878266	99884186	TNBC-Basal,HER2	2.5	28064	UBAC2
chr13	74688486	74690588	Normal	2.5	18529	KLF12
chr12	1312448	1315598	Normal,TNBC-Basal	2.5	177110	ERC1
chr11	11301258	11302600	TNBC-ClaudinLow	2.5	72975	CSNK2A3
chr11	108908440	108909819	Normal	2.5	373378	DDX10
chr1	55415488	55423065	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	2.5	-27188	TMEM61
chr1	42104292	42106454	TNBC-ClaudinLow	2.5	-155019	EDN2
chr1	187622784	187625381	Normal	2.5	562109	LINC01036
chr9	109718789	109725905	Normal	2.49	96970	ZNF462
chr8	104355442	104358833	Normal,TNBC-ClaudinLow	2.49	-26605	CTHRC1
chr7	87649195	87651883	TNBC-ClaudinLow	2.49	86974	ADAM22
chr6	31039459	31041170	Normal,TNBC-Basal	2.49	19088	HCG22
chr5	149756357	149759181	Normal	2.49	20568	TCOF1
chr3	188105261	188109049	Normal	2.49	163963	LPP
chr2	210502400	210508545	Normal	2.49	61070	MAP2
chr17	66224568	66226344	LuminaB,LuminaA,TNBC-Basal,HER2	2.49	-18688	AMZ2
chr15	25122677	25124773	LuminaB	2.49	22028	SNRPN
chr12	116891442	116894975	Normal,TNBC-Basal,TNBC-ClaudinLow	2.49	-27085	MIR4472-2
chr11	69188824	69200577	TNBC-Basal,HER2	2.49	-105628	LINC01488
chr11	66534419	66538297	Normal	2.49	24152	C11orf80
chr8	29550351	29556517	Normal	2.48	52191	LINC00589
chr5	169077170	169079587	Normal,TNBC-ClaudinLow	2.48	14128	DOCK2
chr21	17126256	17128096	Normal	2.48	24833	USP25
chr20	36859074	36861227	Normal	2.48	-28426	LOC149684
chr20	32669284	32672791	Normal	2.48	29048	EIF2S2
chr2	210231025	210236443	Normal	2.48	-55036	MAP2
chr2	160539707	160543044	Normal,TNBC-ClaudinLow	2.48	27571	BAZ2B
chr19	43632941	43634367	Normal	2.48	-46761	PSG2
chr17	60634768	60637837	LuminaB,LuminaA	2.48	-68459	MRC2
chr17	31154624	31156286	Normal,TNBC-Basal	2.48	48447	MYO1D
chr15	58919841	58921888	Normal,TNBC-Basal	2.48	64942	HSP90AB4P
chr13	102847346	102849985	Normal,TNBC-ClaudinLow	2.48	-150311	MIR4705
chr12	120245126	120247715	Normal	2.48	68675	CIT
chr1	247048436	247049705	Normal	2.48	45656	AHCTF1
chr1	168621731	168624424	Normal	2.48	75365	DPT
chr9	74998338	75000299	Normal	2.47	-19155	ZFAND5
chr8	48181983	48184020	Normal	2.47	9532	SPIDR
chr7	83720862	83722358	Normal	2.47	102607	SEMA3A
chr6	50054132	50055994	TNBC-ClaudinLow	2.47	-38699	DEFB112
chr4	36293550	36294915	Normal	2.47	8589	DTHD1
chr3	151975088	151977545	Normal,TNBC-Basal	2.47	-9512	MBNL1
chr2	227775876	227777156	Normal	2.47	75846	RHBDD1
chr2	142223786	142228304	LuminaB,LuminaA	2.47	663225	LRP1B
chr13	102278697	102280933	Normal,TNBC-Basal,TNBC-ClaudinLow	2.47	137513	ITGBL1
chr11	27933421	27936220	TNBC-ClaudinLow	2.47	-143541	MIR610
chr1	195819858	195822141	Normal	2.47	730612	MIR4735
chrX	18913362	18915076	Normal	2.46	5806	PHKA2-AS1
chr8	99251242	99253503	Normal	2.46	54249	NIPAL2
chr8	8879434	8881869	TNBC-ClaudinLow	2.46	20338	ERI1
chr6	150016291	150019567	Normal	2.46	19632	LATS1
chr6	145802463	145806178	Normal	2.46	-251684	LOC100507557
chr6	136226711	136229236	Normal,TNBC-ClaudinLow	2.46	55140	PDE7B
chr5	77582727	77584948	Normal,TNBC-ClaudinLow	2.46	6742	AP3B1
chr5	66641413	66643662	Normal	2.46	-149920	CD180
chr4	134514767	134516738	Normal	2.46	445283	PCDH10
chr4	123889002	123889883	Normal	2.46	45218	SPATA5
chr3	58973611	58976759	Normal,TNBC-ClaudinLow	2.46	60530	C3orf67
chr3	184349983	184359016	LuminaB,TNBC-Basal,HER2	2.46	74913	EPHB3
chr2	235577514	235580607	Normal,TNBC-ClaudinLow	2.46	-173363	ARL4C
chr2	160371278	160374177	Normal,TNBC-Basal,TNBC-ClaudinLow	2.46	-99077	LOC643072
chr18	699977	701491	Normal	2.46	11783	ENOSF1
chr18	66388738	66389812	Normal	2.46	6785	CCDC102B
chr18	42834374	42836699	Normal	2.46	42590	SLC14A2
chr16	77910830	77912555	TNBC-ClaudinLow	2.46	89210	VAT1L
chr14	37240435	37242096	LuminaB,LuminaA,HER2	2.46	114493	PAX9
chr11	27255098	27256898	Normal	2.46	-14338	BBOX1-AS1
chr10	72415160	72417598	Normal,TNBC-ClaudinLow	2.46	-16179	ADAMTS14
chr10	120677290	120679270	TNBC-ClaudinLow	2.46	-110947	NANOS1
chr1	2241946	2249337	TNBC-ClaudinLow	2.46	38459	LOC100129534
chr1	20363435	20366388	Normal	2.46	-31789	PLA2G5
chr1	11191578	11195791	Normal	2.46	-10270	MTOR-AS1
chr9	76692332	76694748	TNBC-ClaudinLow	2.45	-292906	LOC101927358
chr9	126802656	126804474	TNBC-ClaudinLow	2.45	29677	LHX2
chr9	103173207	103175065	Normal,LuminaA,TNBC-Basal,TNBC-ClaudinLow,HER2	2.45	-15358	MSANTD3
chr8	115020478	115024480	HER2	2.45	-573237	CSMD3
chr8	110093818	110096357	Normal	2.45	-4565	TRHR
chr6	21450684	21452285	LuminaB	2.45	60639	LINC00581
chr6	140290261	140293341	Normal,TNBC-ClaudinLow	2.45	-5654	LOC100507477
chr5	67237772	67239134	Normal	2.45	-247250	LOC102467655
chr5	170202076	170205487	TNBC-Basal	2.45	-6941	GABRP
chr5	16991186	16993603	Normal	2.45	-56009	MYO10
chr5	143447425	143449324	Normal	2.45	101904	YIPF5
chr5	127109990	127111799	LuminaB	2.45	122188	CTXN3
chr4	38728933	38733354	TNBC-Basal	2.45	53468	TLR10
chr3	98542002	98544172	TNBC-ClaudinLow	2.45	77446	DCBLD2
chr22	39847933	39851327	TNBC-Basal	2.45	-3694	MGAT3
chr2	20831371	20836684	LuminaB	2.45	16837	HS1BP3
chr2	182931293	182932706	Normal	2.45	81449	PPP1R1C
chr14	94678702	94680719	Normal,TNBC-ClaudinLow	2.45	39062	PPP4R4
chr14	64540586	64542854	Normal	2.45	-139138	SYNE2
chr14	32486727	32489285	Normal	2.45	57899	ARHGAP5-AS1
chr13	50424578	50426790	Normal	2.45	-38860	CTAGE10P
chr10	121519608	121521722	Normal,TNBC-ClaudinLow	2.45	35107	INPP5F
chr1	198731493	198734747	Normal	2.45	94991	MIR181B1
chrX	68113800	68115894	Normal	2.44	66008	EFNB1
chrX	46669588	46673680	LuminaB,HER2	2.44	-24712	RP2
chrX	30143729	30147915	LuminaB,LuminaA	2.44	-87852	MAGEB2
chr9	109639773	109644863	Normal	2.44	16941	ZNF462
chr6	97234932	97239215	HER2	2.44	48280	GPR63
chr6	134025037	134029512	Normal,TNBC-ClaudinLow	2.44	-115010	LINC01312
chr6	111739024	111741218	Normal	2.44	-64553	TRAF3IP2-AS1
chr5	81930163	81933098	Normal	2.44	-204343	MIR3977
chr5	79266056	79268143	Normal,TNBC-ClaudinLow	2.44	19989	MTX3
chr5	174202663	174205545	LuminaB,LuminaA	2.44	25368	MIR4634
chr4	151689246	151692027	Normal,TNBC-ClaudinLow	2.44	187560	MAB21L2
chr4	138282335	138284422	Normal	2.44	170274	PCDH18
chr3	50949313	50951479	LuminaB,HER2	2.44	237725	DOCK3
chr20	18368779	18370163	Normal	2.44	9779	LINC00851
chr20	18152570	18154583	Normal	2.44	27834	CSRP2BP
chr2	85002272	85003896	TNBC-ClaudinLow	2.44	105285	TRABD2A
chr2	62914154	62915917	Normal	2.44	14050	EHBP1
chr18	54671126	54672951	Normal	2.44	67312	LINC-ROR
chr16	55761343	55764858	TNBC-Basal,HER2	2.44	4264	CES1P2
chr15	64538036	64543432	Normal,TNBC-ClaudinLow	2.44	-85380	PPIB
chr15	48962934	48965029	Normal	2.44	-25996	FBN1
chr15	37338773	37340383	Normal	2.44	50984	MEIS2
chr13	110000350	110002629	Normal,TNBC-Basal,TNBC-ClaudinLow	2.44	-51553	LINC00399
chr12	64992779	64994677	LuminaB,LuminaA	2.44	-10564	RASSF3
chr11	132707956	132709333	TNBC-ClaudinLow	2.44	104393	OPCML
chr11	13242941	13246550	Normal	2.44	-54528	ARNTL
chr10	65396439	65398651	LuminaA	2.44	116423	REEP3
chr10	64341414	64344055	Normal,TNBC-ClaudinLow	2.44	62528	ZNF365
chr1	246754866	246758954	Normal	2.44	27272	CNST
chr1	162573607	162577157	Normal,TNBC-Basal,TNBC-ClaudinLow	2.44	-26845	DDR2
chr9	93747216	93749744	Normal	2.43	88934	LOC100129316
chr9	74317562	74320317	Normal	2.43	64861	TMEM2
chr8	49103904	49105534	Normal	2.43	183725	UBE2V2
chr7	102566319	102568229	Normal	2.43	13931	LRRC17
chr4	161769067	161772309	LuminaB,LuminaA	2.43	0	none
chr3	3644089	3646531	Normal	2.43	-195810	LRRN1
chr3	190976510	190977604	TNBC-Basal	2.43	46736	OSTN
chr3	156815208	156818693	Normal,TNBC-Basal	2.43	9281	LINC00881
chr2	29361561	29363008	Normal	2.43	23993	CLIP4
chr18	56446102	56447341	Normal	2.43	-83339	ZNF532
chr16	72275385	72279098	Normal	2.43	-70892	PMFBP1
chr15	64007724	64012176	Normal	2.43	116197	HERC1
chr14	47043415	47044434	TNBC-ClaudinLow	2.43	77104	RPL10L
chr11	78883888	78886434	Normal	2.43	227992	MIR708
chr11	108478858	108482416	Normal,TNBC-ClaudinLow	2.43	-16263	EXPH5
chr1	59338866	59341642	TNBC-Basal	2.43	89432	LINC01135
chr9	91074847	91082205	Normal	2.42	-71489	NXNL2
chr8	117594817	117597213	HER2	2.42	172047	EIF3H
chr6	144650336	144653815	LuminaB,HER2	2.42	39203	UTRN
chr6	10872123	10875939	LuminaB,TNBC-Basal,HER2	2.42	8067	GCM2
chr5	55613663	55616818	Normal,TNBC-ClaudinLow	2.42	-86054	ANKRD55
chr5	49702386	49703195	Normal	2.42	34444	EMB
chr5	137288832	137291275	Normal	2.42	64929	PKD2L2
chr20	19705621	19708150	Normal	2.42	-160279	RIN2
chr2	239628766	239630128	Normal	2.42	-127225	TWIST2
chr18	14805974	14807120	LuminaB	2.42	-23617	MIR3156-2
chr15	54551719	54552539	LuminaA	2.42	247029	UNC13C
chr13	100861758	100868426	Normal,TNBC-ClaudinLow	2.42	123824	PCCA
chr11	118367432	118369586	TNBC-ClaudinLow	2.42	-29700	TTC36
chr11	10282590	10284563	Normal,TNBC-ClaudinLow	2.42	32178	SBF2
chr10	91096367	91098019	Normal,TNBC-Basal,TNBC-ClaudinLow	2.42	4958	IFIT3
chr10	112131310	112134257	TNBC-ClaudinLow	2.42	-68076	SMNDC1
chr1	28269344	28270949	TNBC-ClaudinLow	2.42	8643	SMPDL3B
chrX	35368640	35369876	Normal	2.41	408346	FAM47B
chr8	16270428	16274745	Normal,TNBC-ClaudinLow	2.41	-222286	MSR1
chr7	148753288	148754125	TNBC-ClaudinLow	2.41	-27924	PDIA4
chr7	131982288	131985059	TNBC-ClaudinLow	2.41	277650	PLXNA4
chr6	79947448	79950626	TNBC-Basal	2.41	-4582	HMGN3
chr6	116531022	116533022	Normal,TNBC-Basal	2.41	43239	TSPYL4
chr5	92480412	92482364	Normal	2.41	425661	NR2F1-AS1
chr5	79250320	79253736	Normal	2.41	35060	MTX3
chr5	111929175	111931432	HER2	2.41	-33829	LOC102467214
chr4	11488725	11490916	Normal	2.41	-59283	HS3ST1
chr4	106633357	106636845	Normal	2.41	3132	GSTCD
chr3	96677487	96681581	Normal,TNBC-Basal	2.41	146110	EPHA6
chr3	178109981	178113252	Normal	2.41	-25372	LINC01014
chr21	38217983	38220836	Normal,TNBC-ClaudinLow	2.41	119547	HLCS
chr2	224587870	224593149	Normal,TNBC-ClaudinLow,HER2	2.41	111810	AP1S3
chr18	12860913	12864182	Normal,TNBC-Basal	2.41	21787	PTPN2
chr17	48260397	48263221	Normal	2.41	-11972	HILS1
chr14	95008127	95009850	TNBC-ClaudinLow	2.41	-18768	SERPINA4
chr12	57781777	57784676	Normal,TNBC-ClaudinLow	2.41	-45241	INHBC
chr10	89526706	89528223	TNBC-ClaudinLow	2.41	50453	ATAD1
chr1	185687029	185689304	Normal	2.41	-15516	HMCN1
chr1	17590830	17592928	Normal	2.41	16287	PADI3
chr1	119505372	119507301	TNBC-ClaudinLow	2.41	25843	TBX15
chrX	37220041	37221827	Normal	2.4	12352	PRRG1
chr4	122588637	122590972	Normal,TNBC-ClaudinLow	2.4	28343	ANXA5
chr3	31044820	31047406	Normal	2.4	-109960	GADL1
chr21	38709147	38715423	Normal,TNBC-ClaudinLow,HER2	2.4	-27573	DYRK1A
chr21	17212665	17215946	Normal	2.4	111962	USP25
chr20	14680748	14682272	Normal	2.4	146481	MACROD2-IT1
chr2	44045306	44046990	TNBC-ClaudinLow	2.4	19810	ABCG5
chr2	171821665	171823780	Normal	2.4	37687	GORASP2
chr2	102232859	102237480	TNBC-ClaudinLow	2.4	-78995	MAP4K4
chr17	55964401	56039036	LuminaB,LuminaA	2.4	-20968	CUEDC1
chr12	45989803	45991873	LuminaB,LuminaA	2.4	130866	LINC00938
chr12	3959884	3961682	LuminaA	2.4	21831	PARP11
chr12	27732193	27737868	Normal	2.4	57986	PPFIBP1
chr12	109526087	109527766	TNBC-ClaudinLow	2.4	4367	ALKBH2
chr10	89142339	89143162	Normal,TNBC-ClaudinLow	2.4	24707	LINC00864
chr1	56663608	56670121	HER2	2.4	378393	PPAP2B
chr8	41105048	41109067	TNBC-Basal,TNBC-ClaudinLow	2.39	59933	SFRP1
chr8	130016412	130018929	Normal	2.39	235816	LINC00977
chr7	79706994	79708567	Normal	2.39	-56359	GNAI1
chr7	107978565	107982825	LuminaB,LuminaA,HER2	2.39	-100081	NRCAM
chr6	145407795	145409368	Normal	2.39	-647423	LOC100507557
chr6	117860947	117863879	Normal	2.39	58594	DCBLD1
chr5	71758496	71760673	Normal	2.39	43665	ZNF366
chr4	55890990	55892834	Normal	2.39	99850	KDR
chr19	4220034	4221315	TNBC-ClaudinLow	2.39	-8865	EBI3
chr18	26484652	26486467	Normal,TNBC-ClaudinLow	2.39	-728114	CDH2
chr13	38288563	38291547	TNBC-ClaudinLow	2.39	-117074	POSTN
chr13	114769460	114771531	TNBC-Basal,TNBC-ClaudinLow	2.39	127600	RASA3
chr1	218582375	218584988	Normal	2.39	-32286	TGFB2-OT1
chr1	157384179	157387414	Normal	2.39	136514	FCRL5
chrX	37263642	37265845	Normal	2.38	56161	PRRG1
chrX	36627662	36628575	TNBC-ClaudinLow	2.38	-169743	RP11-87M18.2
chr9	97778540	97784284	Normal,TNBC-ClaudinLow	2.38	-46219	MIR6081
chr8	88949685	88952376	HER2	2.38	-64734	DCAF4L2
chr8	141183269	141187731	Normal,TNBC-Basal	2.38	282361	TRAPPC9
chr5	61219479	61220522	Normal	2.38	-188475	LOC100506526
chr5	100628145	100629096	LuminaB,LuminaA	2.38	-389631	ST8SIA4
chr2	239639952	239641562	Normal	2.38	-115915	TWIST2
chr2	233915529	233917452	Normal,TNBC-Basal	2.38	-8186	INPP5D
chr2	109277705	109279741	Normal,TNBC-ClaudinLow	2.38	7456	LIMS1
chr19	13153433	13159748	TNBC-Basal,TNBC-ClaudinLow	2.38	21196	NFIX
chr18	61429016	61432393	Normal	2.38	10424	SERPINB7
chr18	56266298	56268739	Normal,TNBC-ClaudinLow	2.38	28671	ALPK2
chr16	86712801	86715267	Normal,TNBC-ClaudinLow	2.38	101920	FOXL1
chr16	58079079	58082469	TNBC-Basal	2.38	21493	MMP15
chr15	44498944	44501277	Normal,TNBC-ClaudinLow	2.38	-12618	FRMD5
chr14	52338084	52341766	Normal	2.38	12904	GNG2
chr13	102044749	102046031	Normal	2.38	23423	NALCN
chr12	89655056	89656938	LuminaB,HER2	2.38	90639	DUSP6
chr12	58779540	58782823	Normal,TNBC-Basal,TNBC-ClaudinLow	2.38	-204302	LOC100506869
chr11	32333533	32335503	TNBC-ClaudinLow	2.38	117845	WT1
chr11	129092807	129096173	Normal	2.38	-32397	ARHGAP32
chr1	113135764	113139083	LuminaB,LuminaA	2.38	24617	ST7L
chr1	109434444	109436560	Normal	2.38	15900	GPSM2
chr9	94532722	94533812	Normal	2.37	-134640	MIR3910-2
chr9	89798481	89801576	Normal	2.37	36470	C9orf170
chr9	31611791	31613557	Normal	2.37	-771926	ACO1
chr8	81809949	81814026	Normal,TNBC-Basal,HER2	2.37	-24971	ZNF704
chr7	76583742	76585085	TNBC-Basal,TNBC-ClaudinLow	2.37	-25725	DTX2P1-UPK3BP1-PMS2P11
chr6	31015465	31018376	Normal	2.37	-4306	HCG22
chr6	21839881	21841870	Normal	2.37	174201	CASC15
chr5	51969971	51971377	TNBC-ClaudinLow	2.37	-113099	PELO
chr5	50039933	50041942	Normal	2.37	78166	PARP8
chr4	90686533	90687980	Normal	2.37	-70295	SNCA-AS1
chr4	87959658	87961165	Normal	2.37	32259	AFF1
chr4	81058208	81061364	Normal	2.37	-46637	PRDM8
chr3	150754716	150756878	Normal,TNBC-Basal,TNBC-ClaudinLow	2.37	-48787	MED12L
chr2	225382217	225387832	Normal	2.37	49518	CUL3
chr2	214093918	214095778	Normal	2.37	54081	LOC100130451
chr18	51707946	51709322	Normal	2.37	40148	SNORA37
chr17	46017058	46040572	LuminaB,LuminaA	2.37	6428	PRR15L
chr17	34423058	34424470	LuminaB	2.37	-6258	CCL3
chr14	97287037	97289155	Normal	2.37	24413	VRK1
chr13	40821217	40822617	Normal	2.37	-27278	LINC00548
chr12	96877877	96884411	Normal,TNBC-ClaudinLow	2.37	-86778	CDK17
chr11	90819057	90820060	Normal	2.37	-530533	MIR4490
chr11	16116944	16121864	Normal	2.37	-128237	MIR6073
chr11	106856812	106861917	LuminaB,HER2	2.37	29807	GUCY1A2
chr1	99405515	99407350	Normal	2.37	-63399	LOC100129620
chrX	40785369	40786406	TNBC-ClaudinLow	2.36	-93438	LOC100132831
chrX	104861122	104864232	TNBC-Basal	2.36	-203858	NRK
chrX	102474616	102476639	LuminaB	2.36	5608	BEX4
chr9	83480295	83483867	Normal	2.36	821515	TLE1
chr8	99822389	99824204	TNBC-Basal	2.36	14603	STK3
chr7	155599698	155601141	TNBC-ClaudinLow	2.36	4548	SHH
chr7	105766060	105768270	TNBC-ClaudinLow	2.36	-14072	SYPL1
chr6	148886264	148888607	Normal,TNBC-ClaudinLow	2.36	-180835	UST
chr6	145274366	145276575	Normal	2.36	662598	UTRN
chr5	93578777	93580255	Normal	2.36	-132112	FAM172A
chr5	55111581	55112807	Normal	2.36	-35012	IL31RA
chr5	37614120	37616528	TNBC-ClaudinLow	2.36	219600	GDNF
chr5	34715134	34719833	TNBC-Basal,TNBC-ClaudinLow	2.36	29820	RAI14
chr5	142729329	142731701	Normal	2.36	52739	NR3C1
chr5	138238232	138240505	Normal,TNBC-ClaudinLow	2.36	-28311	LRRTM2
chr4	22188485	22190192	TNBC-ClaudinLow	2.36	151951	LOC100505912
chr3	57837968	57839136	Normal	2.36	95379	SLMAP
chr3	55439969	55442522	Normal	2.36	74181	WNT5A
chr3	33790300	33792428	Normal	2.36	-31659	CLASP2
chr21	30706714	30709361	Normal,TNBC-ClaudinLow	2.36	30513	BACH1
chr2	142212533	142214159	LuminaB,LuminaA	2.36	675924	LRP1B
chr17	40587892	40589101	Normal,TNBC-ClaudinLow	2.36	-13158	PTRF
chr14	50867994	50871984	HER2	2.36	-5867	CDKL1
chr12	46590987	46598248	LuminaB,LuminaA	2.36	65661	SLC38A1
chr11	19253671	19255470	Normal,TNBC-ClaudinLow	2.36	7937	E2F8
chr11	124889274	124891932	LuminaB,LuminaA	2.36	-42409	SLC37A2
chr10	44425936	44427763	TNBC-ClaudinLow	2.36	22098	LINC00841
chr7	129881254	129883927	Normal	2.35	-24112	CPA2
chr6	134397123	134399772	TNBC-ClaudinLow	2.35	-24658	SLC2A12
chr21	43421160	43425986	Normal	2.35	-5729	ZNF295-AS1
chr21	36723017	36726074	Normal	2.35	228517	LOC100506403
chr2	216329102	216331422	Normal	2.35	11833	LOC102724849
chr2	102435094	102438207	Normal,TNBC-Basal,TNBC-ClaudinLow	2.35	122113	MAP4K4
chr18	3359162	3362328	TNBC-Basal	2.35	-51179	TGIF1
chr15	40176080	40179577	Normal	2.35	35265	GPR176
chr12	64854541	64856704	Normal	2.35	9783	TBK1
chr12	47314530	47316352	Normal	2.35	-95661	SLC38A4
chr11	123307255	123310932	HER2	2.35	-56873	MIR4493
chr1	207853038	207855671	Normal	2.35	35897	CR1L
chr9	129960552	129962125	TNBC-ClaudinLow	2.34	-64602	GARNL3
chr8	98277017	98280560	LuminaB,LuminaA	2.34	11388	TSPYL5
chr8	15274077	15274995	TNBC-ClaudinLow	2.34	-123059	TUSC3
chr7	14888967	14890957	TNBC-ClaudinLow	2.34	-8887	DGKB
chr6	48067702	48070173	Normal	2.34	-32512	PTCHD4
chr6	170459779	170462309	LuminaB,LuminaA,HER2	2.34	-14821	LOC102724511
chr6	128764295	128766466	TNBC-Basal	2.34	76439	PTPRK
chr6	113368881	113372544	Normal	2.34	600565	LOC101927686
chr5	179482716	179485076	Normal,TNBC-ClaudinLow	2.34	15222	RNF130
chr5	134840652	134843510	Normal	2.34	29558	NEUROG1
chr5	128513716	128515132	LuminaA	2.34	81044	MIR4633
chr4	30950310	30954702	Normal	2.34	-220259	LOC102723778
chr4	154929178	154932043	Normal	2.34	-220382	SFRP2
chr3	152004258	152007512	Normal,TNBC-Basal	2.34	-11308	MBNL1
chr3	141559141	141561233	Normal,TNBC-Basal	2.34	-35282	ATP1B3
chr3	101630891	101633450	Normal	2.34	-27532	LOC152225
chr2	145558676	145560149	Normal,TNBC-ClaudinLow	2.34	133879	TEX41
chr2	124275220	124276985	Normal	2.34	-506761	CNTNAP5
chr18	42100363	42102999	Normal	2.34	9981	LINC01478
chr17	35949344	35950865	Normal	2.34	19382	SYNRG
chr14	34710334	34714014	HER2	2.34	219294	SPTSSA
chr13	99938832	99941530	TNBC-Basal	2.34	19568	GPR183
chr13	64866627	64869925	LuminaB,LuminaA	2.34	-556125	LINC00395
chr12	85212038	85213343	Normal	2.34	93918	SLC6A15
chr11	46578435	46584001	Normal,TNBC-Basal,TNBC-ClaudinLow	2.34	31696	AMBRA1
chr10	15222036	15224161	TNBC-ClaudinLow	2.34	-12403	NMT2
chrX	140222216	140223727	LuminaB,LuminaA	2.33	-10650	RNU6-2
chr9	79301591	79304299	Normal,TNBC-ClaudinLow	2.33	-76408	PCA3
chr9	76194863	76196655	LuminaB	2.33	428979	ANXA1
chr8	41218514	41219626	TNBC-Basal	2.33	-52080	SFRP1
chr8	10136920	10138959	TNBC-ClaudinLow	2.33	184878	MSRA
chr7	23395183	23399115	Normal,TNBC-Basal,TNBC-ClaudinLow	2.33	58210	MALSU1
chr6	163825554	163827669	TNBC-ClaudinLow	2.33	8371	CAHM
chr5	92847461	92849952	Normal	2.33	58343	NR2F1-AS1
chr5	66354613	66356443	Normal	2.33	55081	MAST4
chr5	175584409	175585928	Normal	2.33	38617	LOC100507387
chr5	162904339	162907162	Normal	2.33	15314	HMMR-AS1
chr5	131080514	131082313	Normal	2.33	51343	FNIP1
chr5	121433982	121435918	Normal,TNBC-ClaudinLow	2.33	-20895	LOX
chr4	183109708	183111885	Normal	2.33	20351	MIR1305
chr3	10398458	10400528	Normal,TNBC-ClaudinLow	2.33	-36621	SEC13
chr21	28206904	28208628	Normal	2.33	9962	ADAMTS1
chr21	22398811	22404642	LuminaB,LuminaA	2.33	31094	NCAM2
chr20	13593883	13596622	Normal	2.33	24331	TASP1
chr2	206525098	206526646	Normal	2.33	-21351	NRP2
chr19	58097858	58099966	Normal,TNBC-ClaudinLow	2.33	3285	ZIK1
chr17	47408848	47417811	LuminaB,LuminaA	2.33	-25197	LOC102724596
chr15	35799596	35801902	Normal	2.33	-37646	DPH6-AS1
chr12	62607949	62611371	Normal	2.33	-23040	FAM19A2
chr11	80456345	80457336	LuminaB,LuminaA,HER2	2.33	17006	LOC101928944
chr10	98473212	98474888	TNBC-ClaudinLow	2.33	6229	PIK3AP1
chr10	31995704	31997773	Normal,TNBC-ClaudinLow	2.33	201116	ARHGAP12
chr1	230082964	230084888	Normal	2.33	-109609	GALNT2
chr8	82504488	82506608	LuminaB	2.32	-61998	FABP12
chr6	112628628	112632392	TNBC-Basal	2.32	-38021	RFPL4B
chr4	7987685	7991885	TNBC-ClaudinLow	2.32	-48132	AFAP1
chr4	16254163	16256575	Normal,TNBC-ClaudinLow	2.32	27084	TAPT1-AS1
chr3	177992073	177994747	Normal	2.32	-143578	LINC01014
chr21	45904802	45906679	TNBC-ClaudinLow	2.32	-20186	TSPEAR-AS1
chr15	80155192	80156994	Normal	2.32	33246	MTHFS
chr15	62768073	62771288	LuminaB	2.32	134453	MIR6085
chr15	57516423	57517432	Normal	2.32	5273	TCF12
chr15	38341544	38344004	Normal,TNBC-ClaudinLow	2.32	10181	LOC101928227
chr13	99860317	99862434	TNBC-Basal	2.32	8213	UBAC2
chr12	75707875	75710464	TNBC-ClaudinLow	2.32	14667	CAPS2
chr1	236246431	236248156	Normal	2.32	-18812	NID1
chr1	187656655	187662206	Normal,TNBC-ClaudinLow	2.32	597457	LINC01036
chr1	105403986	105405720	TNBC-ClaudinLow	2.32	756704	LOC101928476
chr6	148650399	148651838	Normal,TNBC-ClaudinLow	2.31	-12610	SASH1
chr5	96026063	96029276	Normal	2.31	-10823	CAST
chr5	83545768	83547001	TNBC-ClaudinLow	2.31	134301	EDIL3
chr5	167097371	167098917	Normal	2.31	386302	TENM2
chr4	36166894	36167946	Normal	2.31	-78317	LOC439933
chr3	89147133	89148372	Normal	2.31	-8921	EPHA3
chr2	28824223	28838817	Normal,TNBC-Basal,HER2	2.31	112583	PLB1
chr2	191131230	191133052	Normal,TNBC-ClaudinLow	2.31	52630	HIBCH
chr2	122318640	122320869	Normal	2.31	31299	RNU4ATAC
chr19	40449482	40450938	TNBC-ClaudinLow	2.31	-9677	FCGBP
chr17	53139668	53141853	Normal	2.31	94635	STXBP4
chr17	36007660	36009819	Normal,TNBC-ClaudinLow	2.31	-5246	DDX52
chr13	37799090	37802229	Normal	2.31	-120858	CSNK1A1L
chr10	7244932	7246063	LuminaB	2.31	205806	SFMBT2
chr10	109382011	109384421	LuminaA	2.31	445835	LINC01435
chr1	187811070	187813949	Normal,HER2	2.31	750536	LINC01036
chrX	47813130	47814465	LuminaB	2.3	49580	ZNF182
chrX	138801733	138803141	Normal,TNBC-ClaudinLow	2.3	-12056	MCF2
chrX	135146033	135147960	TNBC-ClaudinLow	2.3	79411	SLC9A6
chr7	84000873	84002725	Normal,TNBC-ClaudinLow	2.3	-159992	LOC101927378
chr7	39210963	39213060	HER2	2.3	194403	POU6F2
chr7	19100624	19101411	Normal	2.3	56278	TWIST1
chr7	134309345	134311096	Normal	2.3	-21310	BPGM
chr5	172085211	172088085	Normal	2.3	18373	NEURL1B
chr5	153033192	153035187	Normal	2.3	162458	GRIA1
chr4	30267251	30268504	Normal	2.3	-454152	PCDH7
chr4	166158588	166160457	Normal	2.3	28352	KLHL2
chr3	87295144	87297564	Normal	2.3	19942	CHMP2B
chr3	78188021	78191785	Normal,TNBC-ClaudinLow	2.3	878706	ROBO1
chr3	27631089	27633442	Normal,TNBC-ClaudinLow	2.3	-106354	SLC4A7
chr18	71405414	71407602	Normal	2.3	408491	FBXO15
chr18	66103156	66104316	Normal,TNBC-ClaudinLow	2.3	278617	TMX3
chr18	55512329	55514888	Normal,TNBC-ClaudinLow	2.3	-43281	ATP8B1
chr16	25077276	25079336	LuminaB,LuminaA,TNBC-ClaudinLow	2.3	35245	LOC554206
chr15	71268837	71269785	Normal	2.3	84530	LRRC49
chr12	31230190	31232284	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	2.3	-4456	DDX11-AS1
chr12	110381877	110383965	TNBC-ClaudinLow	2.3	44599	TCHP
chr11	122767710	122770012	Normal,TNBC-ClaudinLow	2.3	15626	C11orf63
chr11	105901244	105903168	Normal	2.3	-9252	MSANTD4
chr1	97829089	97831412	Normal	2.3	268772	DPYD-AS1
chr1	22089217	22097433	Normal	2.3	16363	USP48
chr1	185421879	185424143	Normal	2.3	-118840	GS1-279B7.1
chr1	118213511	118219151	LuminaA	2.3	67728	FAM46C
chrX	16006462	16008519	Normal,TNBC-ClaudinLow	2.29	-133933	GRPR
chrX	11301346	11304105	LuminaB	2.29	-8807	AMELX
chr9	133669431	133670982	Normal	2.29	-40435	ABL1
chr6	57919698	57921298	Normal	2.29	367226	GUSBP4
chr6	153418110	153419321	Normal	2.29	33674	RGS17
chr6	134098794	134100708	Normal,TNBC-ClaudinLow	2.29	-42533	LINC01312
chr5	72622335	72625463	Normal,TNBC-ClaudinLow	2.29	120453	FOXD1
chr5	50022235	50023915	Normal	2.29	60304	PARP8
chr5	141314546	141316151	Normal	2.29	11964	KIAA0141
chr5	131820775	131822048	Normal	2.29	5054	IRF1
chr5	131774201	131776315	Normal,TNBC-Basal,TNBC-ClaudinLow	2.29	28794	C5orf56
chr4	15929895	15931637	TNBC-Basal	2.29	9597	FGFBP1
chr3	71742814	71744671	Normal	2.29	30784	EIF4E3
chr3	27188447	27189491	Normal	2.29	221943	NEK10
chr3	152812735	152813836	TNBC-Basal	2.29	-66715	RAP2B
chr3	119885193	119898369	Normal,TNBC-Basal,TNBC-ClaudinLow	2.29	71361	GPR156
chr20	40287125	40291472	LuminaB,LuminaA	2.29	-42165	CHD6
chr18	52400364	52402241	Normal	2.29	-94405	RAB27B
chr17	73387649	73394026	LuminaB,LuminaA	2.29	10952	GRB2
chr17	30650290	30652004	TNBC-Basal,TNBC-ClaudinLow	2.29	18081	C17orf75
chr12	92641722	92643512	Normal	2.29	-102944	BTG1
chr11	79141682	79144099	Normal	2.29	8805	TENM4
chr11	108205039	108206596	Normal	2.29	112259	ATM
chr10	4822141	4825176	TNBC-ClaudinLow	2.29	-44710	AKR1E2
chr10	33991257	33997794	Normal,TNBC-Basal	2.29	67083	LINC00838
chr8	18858586	18872722	TNBC-ClaudinLow	2.28	5542	PSD3
chr7	92603178	92604081	Normal	2.28	-137688	CDK6
chr7	65466376	65468758	LuminaB	2.28	-20266	GUSB
chr7	31938516	31940140	TNBC-Basal	2.28	171146	PDE1C
chr7	19047812	19051879	Normal,TNBC-ClaudinLow	2.28	107450	TWIST1
chr6	88481136	88484487	LuminaB,LuminaA	2.28	-11766	LOC101928911
chr6	161392912	161393798	Normal	2.28	-19403	MAP3K4
chr3	98974894	98975956	Normal	2.28	-354892	DCBLD2
chr20	15743962	15745017	Normal	2.28	566986	MACROD2
chr2	187139044	187140068	Normal	2.28	-188512	LINC01473
chr2	138869453	138871275	Normal	2.28	148557	HNMT
chr2	10677483	10679922	TNBC-ClaudinLow	2.28	88849	LOC101929715
chr18	55360777	55362168	Normal,TNBC-ClaudinLow	2.28	63939	LOC100505549
chr17	61654633	61657973	LuminaB,LuminaA	2.28	-21927	TACO1
chrX	149871676	149873617	Normal	2.27	10778	MTMR1
chrX	100520227	100522012	TNBC-ClaudinLow	2.27	25206	TAF7L
chr7	158854013	158855021	TNBC-Basal,TNBC-ClaudinLow	2.27	53473	LINC00689
chr6	141747257	141748487	Normal	2.27	662064	NMBR
chr5	96228162	96229986	Normal,TNBC-ClaudinLow	2.27	17431	ERAP2
chr5	40687154	40691070	TNBC-ClaudinLow	2.27	9081	PTGER4
chr4	166161238	166163058	Normal	2.27	30978	KLHL2
chr3	173460069	173462249	Normal	2.27	177427	NLGN1-AS1
chr20	45384859	45388915	HER2	2.27	48609	SLC2A10
chr2	54291762	54294016	Normal	2.27	-49520	ACYP2
chr2	217488616	217492434	LuminaB,LuminaA	2.27	-7601	IGFBP2
chr17	6469382	6472467	Normal,LuminaA,TNBC-Basal,HER2	2.27	-11047	PITPNM3
chr16	69477678	69479871	Normal,TNBC-Basal	2.27	20277	CYB5B
chr16	12431327	12433192	Normal	2.27	361669	SNX29
chr13	40105139	40106854	Normal,TNBC-Basal,TNBC-ClaudinLow	2.27	71360	LHFP
chr13	32059370	32060606	TNBC-ClaudinLow	2.27	-253690	RXFP2
chr13	30331460	30334152	Normal	2.27	92014	UBL3
chr1	185364783	185366628	Normal	2.27	-61534	GS1-279B7.1
chr1	103344061	103346521	Normal,TNBC-ClaudinLow	2.27	228761	COL11A1
chr7	139579262	139580251	Normal	2.26	50805	TBXAS1
chr6	121913041	121915589	LuminaB	2.26	157593	GJA1
chr6	11083042	11085095	TNBC-ClaudinLow	2.26	-10197	SMIM13
chr5	106837280	106838376	Normal	2.26	168768	EFNA5
chr4	83300526	83302911	LuminaB,LuminaA	2.26	-6569	HNRNPD
chr4	132524535	132525819	Normal	2.26	-160815	LOC101927305
chr4	106117254	106120808	Normal	2.26	51190	TET2
chr20	55663895	55666192	LuminaB,LuminaA,HER2	2.26	-123708	BMP7-AS1
chr20	19786712	19789938	Normal,HER2	2.26	-78839	RIN2
chr2	224873605	224876098	Normal,TNBC-ClaudinLow	2.26	21344	SERPINE2
chr18	56731893	56734164	Normal	2.26	30058	OACYLP
chr16	11169859	11175082	Normal,TNBC-ClaudinLow	2.26	134126	CLEC16A
chr12	92319850	92321376	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	2.26	214876	C12orf79
chr12	105719599	105721942	Normal,TNBC-ClaudinLow	2.26	-3643	C12orf75
chr11	130777808	130780370	Normal,TNBC-ClaudinLow	2.26	7293	SNX19
chr11	130334133	130336292	TNBC-ClaudinLow	2.26	16344	ADAMTS15
chr1	172341827	172344743	Normal	2.26	-46542	C1orf105
chrX	102621982	102622967	Normal	2.25	-8776	NGFRAP1
chr9	75275881	75277634	Normal	2.25	140041	TMC1
chr9	117667418	117673888	Normal,LuminaB	2.25	22222	TNFSF8
chr8	73005863	73007671	Normal,HER2	2.25	-18948	TRPA1
chr6	22230227	22232840	Normal	2.25	66197	PRL
chr5	40904598	40907286	Normal	2.25	-3656	C7
chr5	102347708	102353513	LuminaB,LuminaA	2.25	105232	GIN1
chr4	2583679	2586716	Normal,LuminaB,LuminaA	2.25	-41961	FAM193A
chr21	37631889	37633526	Normal,TNBC-ClaudinLow	2.25	-59779	MORC3
chr20	23208868	23210178	Normal	2.25	-96250	LINC00656
chr2	161267019	161269241	Normal,TNBC-Basal,TNBC-ClaudinLow	2.25	-3737	MIR4785
chr18	57337560	57340942	Normal	2.25	25393	CCBE1
chr18	53430305	53431716	Normal	2.25	-127786	TCF4
chr15	45729692	45732157	TNBC-ClaudinLow	2.25	5677	MIR147B
chr14	43779950	43783614	LuminaB,LuminaA	2.25	0	none
chr14	30721438	30723372	Normal	2.25	-305923	G2E3
chr13	111903214	111906078	TNBC-Basal	2.25	65474	ARHGEF7
chr12	28641357	28642984	Normal	2.25	232038	CCDC91
chr10	76048160	76056787	Normal,TNBC-Basal,HER2	2.25	116227	ADK
chr1	49773084	49774356	HER2	2.25	50638	LOC101929721
chr1	28115044	28117189	Normal	2.25	16423	STX12
chr1	229575984	229577997	Normal	2.25	-7147	ACTA1
chrX	49032822	49034241	Normal	2.24	5348	PLP2
chr9	16308961	16311233	TNBC-Basal,HER2	2.24	-33786	C9orf92
chr7	78947158	78948038	TNBC-ClaudinLow	2.24	-134674	MAGI2-AS3
chr7	113281801	113283064	Normal	2.24	276650	PPP1R3A
chr7	108053855	108055599	TNBC-ClaudinLow	2.24	42114	NRCAM
chr4	13967262	13968637	Normal,TNBC-ClaudinLow	2.24	-145642	LINC01085
chr3	62523115	62524336	LuminaA	2.24	-164535	FEZF2
chr2	99542598	99544089	Normal	2.24	9341	KIAA1211L
chr2	69170460	69171743	TNBC-ClaudinLow	2.24	9001	GKN2
chr2	223630873	223634055	LuminaB,LuminaA	2.24	-93267	ACSL3
chr2	216471955	216473045	Normal	2.24	154071	LOC102724849
chr2	177426616	177428310	Normal,TNBC-ClaudinLow	2.24	38317	MIR1246
chr17	16998112	17003052	Normal,TNBC-Basal	2.24	54509	MPRIP
chr12	8861599	8862826	Normal,TNBC-Basal	2.24	9832	RIMKLB
chr12	68903865	68905539	Normal	2.24	-59438	LOC100507195
chr12	122957377	122959460	Normal,TNBC-ClaudinLow	2.24	27202	ZCCHC8
chr10	31985828	31988071	TNBC-Basal,TNBC-ClaudinLow	2.24	210905	ARHGAP12
chr1	76176947	76179308	HER2	2.24	-11904	ACADM
chr1	53647195	53649451	TNBC-ClaudinLow	2.24	-13777	CPT2
chr1	3591885	3592808	LuminaB	2.24	-14889	TP73
chrX	12263146	12265135	Normal,TNBC-ClaudinLow	2.23	107556	FRMPD4
chr9	82424385	82426237	Normal	2.23	-14133	LINC01507
chr7	22649452	22651034	TNBC-ClaudinLow	2.23	47288	LOC100506178
chr6	170345488	170347455	LuminaB,LuminaA	2.23	-129394	LOC102724511
chr6	122114763	122117159	Normal,TNBC-ClaudinLow	2.23	359239	GJA1
chr5	152944451	152946404	Normal	2.23	73696	GRIA1
chr4	26106517	26109315	TNBC-ClaudinLow	2.23	192103	SMIM20
chr4	114926413	114928316	Normal	2.23	-26486	ARSJ
chr3	183172203	183173824	Normal	2.23	7575	LINC00888
chr20	37627250	37630287	LuminaB	2.23	37788	DHX35
chr2	9164680	9167565	LuminaB	2.23	-22246	MBOAT2
chr2	33246771	33250165	Normal	2.23	76100	LTBP1
chr16	77435511	77436546	TNBC-Basal	2.23	32983	ADAMTS18
chr15	58018454	58019881	Normal	2.23	20449	POLR2M
chr13	26305493	26308430	Normal,TNBC-ClaudinLow	2.23	318237	SHISA2
chr1	205308873	205311101	TNBC-Basal,HER2	2.23	16141	KLHDC8A
chr9	131333885	131335668	Normal	2.22	19940	SPTAN1
chr8	17973676	17977332	Normal,TNBC-ClaudinLow	2.22	-32997	ASAH1
chr7	42228201	42229964	Normal	2.22	47536	GLI3
chr7	17700533	17703944	Normal,TNBC-ClaudinLow	2.22	-103705	LOC101927630
chr6	35635427	35638352	Normal,TNBC-Basal,TNBC-ClaudinLow	2.22	-4323	MIR5690
chr5	34234752	34235740	LuminaB	2.22	-110613	C1QTNF3-AMACR
chr5	150362567	150363940	TNBC-ClaudinLow	2.22	-36745	GPX3
chr4	70629138	70630389	Normal	2.22	-3333	SULT1B1
chr4	101555276	101558430	LuminaA,HER2	2.22	39417	LINC01216
chr3	98894573	98896644	Normal	2.22	-275075	DCBLD2
chr3	31903642	31905817	Normal	2.22	-118536	ZNF860
chr3	20122107	20123395	Normal	2.22	41228	KAT2B
chr19	6615805	6616788	Normal	2.22	-25133	CD70
chr16	81245920	81247483	LuminaB,LuminaA	2.22	7274	PKD1L2
chr16	55477692	55479750	TNBC-Basal	2.22	-34020	MMP2
chr16	27921730	27924038	LuminaB	2.22	-23406	GSG1L
chr13	71990527	71992302	TNBC-ClaudinLow	2.22	402142	LINC00348
chr12	91806539	91808425	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	2.22	-230676	DCN
chr12	49795372	49799473	LuminaB,LuminaA	2.22	14466	LOC100335030
chr12	27687013	27688301	Normal	2.22	10613	PPFIBP1
chr1	10516133	10518183	Normal	2.22	7383	CORT
chrX	42661766	42663466	Normal	2.21	-25130	PPP1R2P9
chr9	85536947	85540862	LuminaB,LuminaA	2.21	139139	RASEF
chr9	38727047	38728455	Normal	2.21	106667	FAM201A
chr8	82145949	82147579	Normal,TNBC-ClaudinLow	2.21	-45953	FABP5
chr8	47395542	47396846	HER2	2.21	-356313	LINC00293
chr6	88280598	88285817	LuminaB,LuminaA	2.21	16528	RARS2
chr6	3765747	3767381	Normal	2.21	-14318	PXDC1
chr5	77155675	77158618	LuminaB,LuminaA	2.21	-23333	LOC101929154
chr4	116345417	116346519	Normal	2.21	-310936	NDST4
chr2	67095482	67096784	Normal	2.21	-35434	LOC101060019
chr2	19081814	19083702	LuminaB	2.21	-311912	NT5C1B
chr2	187211505	187215479	Normal,LuminaA	2.21	-137392	ZC3H15
chr2	183457267	183459772	Normal	2.21	-70947	PDE1A
chr17	38965873	38968042	Normal,TNBC-Basal,HER2	2.21	-8386	TMEM99
chr15	33423314	33425654	Normal	2.21	62450	FMN1
chr14	74921253	74922606	HER2	2.21	24978	MIR4709
chr12	98094708	98097176	LuminaB,LuminaA	2.21	51434	LOC643711
chr12	47326596	47328414	Normal	2.21	-107725	SLC38A4
chr1	147083033	147085640	LuminaB,LuminaA,HER2	2.21	58298	ACP6
chr1	12127616	12128957	TNBC-ClaudinLow	2.21	4853	TNFRSF8
chrX	129258585	129260340	Normal,TNBC-Basal	2.2	12553	AIFM1
chr9	120495983	120498175	Normal,TNBC-ClaudinLow	2.2	30627	TLR4
chr7	80466363	80469258	Normal	2.2	80857	SEMA3C
chr7	17867943	17871383	Normal	2.2	110468	SNX13
chr7	154910828	154912383	TNBC-ClaudinLow	2.2	-48338	HTR5A-AS1
chr7	151320002	151322490	Normal,TNBC-ClaudinLow	2.2	8098	PRKAG2
chr6	163949032	163955916	Normal,TNBC-ClaudinLow	2.2	116800	QKI
chr5	33336803	33338491	Normal	2.2	-103154	TARS
chr3	152949842	152951548	Normal	2.2	70695	RAP2B
chr20	485017	486128	Normal	2.2	38910	CSNK2A1
chr2	69407559	69409502	Normal	2.2	77717	MIR3126
chr2	33460791	33464391	Normal,TNBC-ClaudinLow	2.2	102928	LTBP1
chr2	171534814	171537449	LuminaA	2.2	34946	LINC01124
chr17	73331894	73335610	LuminaB,LuminaA	2.2	-48222	SLC25A19
chr16	50570970	50573861	TNBC-Basal,HER2	2.2	-9825	NKD1
chr13	40492330	40493642	Normal	2.2	-254714	MIR4305
chr12	100969780	100971821	TNBC-ClaudinLow	2.2	3312	GAS2L3
chr11	62193214	62196105	TNBC-Basal,TNBC-ClaudinLow	2.2	8153	SCGB1A1
chr10	21258448	21260476	Normal,TNBC-ClaudinLow	2.2	-72931	NEBL
chr1	177816230	177818722	Normal	2.2	121574	SEC16B
chrX	6080950	6083653	HER2	2.19	62943	NLGN4X
chr9	91272237	91274381	Normal	2.19	-6234	LOC286238
chr9	38144100	38145212	TNBC-ClaudinLow	2.19	-75446	SHB
chr8	61929644	61931183	TNBC-ClaudinLow	2.19	-50106	LOC100130298
chr8	27153394	27155283	Normal	2.19	14496	TRIM35
chr8	117507125	117512727	HER2	2.19	-172629	LINC00536
chr7	92364112	92365490	Normal	2.19	98430	CDK6
chr7	28205620	28206949	Normal	2.19	-13791	JAZF1-AS1
chr7	106787144	106788603	TNBC-ClaudinLow	2.19	-21532	HBP1
chr6	7468661	7469498	Normal,TNBC-ClaudinLow	2.19	66200	RIOK1
chr6	56221711	56223109	Normal	2.19	-110032	COL21A1
chr5	65938484	65945884	LuminaB,LuminaA	2.19	50009	MAST4
chr5	127967279	127968596	Normal,TNBC-ClaudinLow	2.19	-94202	FBN2
chr5	119495019	119498561	Normal	2.19	-303182	PRR16
chr4	99810259	99812104	Normal	2.19	39062	EIF4E
chr4	168806189	168808250	Normal	2.19	-206468	ANXA10
chr4	167246860	167248153	Normal	2.19	453097	TLL1
chr4	126118834	126121748	Normal,TNBC-ClaudinLow	2.19	-117275	FAT4
chr3	98742275	98743448	Normal	2.19	-122328	DCBLD2
chr3	94594793	94596301	LuminaA	2.19	-61559	LINC00879
chr3	176867235	176870697	Normal,TNBC-Basal	2.19	46082	TBL1XR1
chr2	177283674	177285449	Normal,TNBC-ClaudinLow	2.19	150439	MTX2
chr16	56868672	56871527	TNBC-Basal,HER2	2.19	-22330	MIR138-2
chr13	62703397	62705727	LuminaB	2.19	-81852	LINC01075
chr13	33816604	33821123	Normal	2.19	-32827	STARD13-AS
chr13	111846199	111847574	Normal,TNBC-Basal,TNBC-ClaudinLow	2.19	7714	ARHGEF7
chr13	111023558	111025713	Normal,TNBC-Basal,TNBC-ClaudinLow	2.19	31331	MIR8073
chr12	98110395	98111187	LuminaB,LuminaA	2.19	36585	LOC643711
chr12	69902173	69904216	Normal	2.19	39066	FRS2
chr10	75989706	75992568	Normal,TNBC-ClaudinLow	2.19	54891	ADK
chr1	168422824	168424472	Normal	2.19	-31754	LOC100505918
chr9	138294083	138297198	LuminaB,LuminaA	2.18	60546	C9orf62
chr9	117768165	117771694	Normal,TNBC-ClaudinLow	2.18	-77054	TNFSF8
chr8	116250614	116252455	Normal,HER2	2.18	428705	TRPS1
chr7	80362915	80364151	Normal	2.18	87565	CD36
chr7	36123751	36125772	LuminaB,LuminaA	2.18	-10158	LOC101928618
chr6	43229113	43231348	LuminaB,LuminaA	2.18	19009	TTBK1
chr6	141655800	141658203	LuminaB,HER2	2.18	652051	MIR4465
chr5	98239929	98241879	Normal,TNBC-ClaudinLow	2.18	21334	CHD1
chr5	98098162	98100007	TNBC-ClaudinLow	2.18	-5914	RGMB
chr5	14907769	14909770	Normal	2.18	-36882	ANKH
chr4	121613325	121614594	TNBC-ClaudinLow	2.18	230062	PRDM5
chr22	37425260	37432034	LuminaB,LuminaA,TNBC-Basal,HER2	2.18	-12423	TST
chr2	236220779	236221855	TNBC-Basal	2.18	-181415	AGAP1
chr2	189767328	189768497	Normal	2.18	-71186	COL3A1
chr18	3373252	3375326	TNBC-Basal	2.18	-37635	TGIF1
chr17	80485463	80491257	Normal	2.18	10767	FOXK2
chr17	41080375	41081922	LuminaA,TNBC-ClaudinLow	2.18	28335	G6PC
chr15	84539804	84541503	Normal	2.18	-208285	EFTUD1P1
chr1	59797556	59800361	Normal,TNBC-ClaudinLow	2.18	23209	FGGY
chr1	101418350	101419634	Normal	2.18	57359	SLC30A7
chr9	20314759	20317001	Normal	2.17	95356	MIR4473
chr9	20205156	20206016	Normal	2.17	205650	MIR4473
chr8	19119109	19121386	Normal,TNBC-ClaudinLow	2.17	-17215	LOC100128993
chr6	140867587	140868664	Normal	2.17	-136825	MIR4465
chr5	90368286	90370018	Normal	2.17	241067	LUCAT1
chr5	125226308	125227182	Normal	2.17	-288524	LOC102546228
chr5	103223990	103225516	LuminaA	2.17	-326251	NUDT12
chr4	48347524	48349595	Normal	2.17	4947	SLAIN2
chr3	31920616	31925693	Normal	2.17	-100111	ZNF860
chr3	145901876	145902676	Normal,TNBC-Basal	2.17	-22994	PLOD2
chr22	47238534	47242376	Normal	2.17	70632	TBC1D22A
chr22	33391619	33397337	Normal,TNBC-Basal	2.17	8328	SYN3
chr2	122249301	122251411	Normal	2.17	-38099	RNU4ATAC
chr18	61154324	61155877	Normal	2.17	10957	SERPINB5
chr18	55857504	55859336	TNBC-ClaudinLow	2.17	-4201	NEDD4L
chr16	87159870	87162088	LuminaB,LuminaA,TNBC-Basal	2.17	69590	LOC440390
chr16	57340727	57342662	TNBC-Basal	2.17	-23110	PLLP
chr15	85839485	85841446	Normal,TNBC-ClaudinLow	2.17	-83381	AKAP13
chr15	48192182	48194143	Normal	2.17	-54729	LINC01491
chr11	47952331	47953981	TNBC-Basal	2.17	-48953	PTPRJ
chr11	43851494	43854066	Normal,TNBC-ClaudinLow	2.17	-49576	ALKBH3
chr11	111588746	111590518	Normal	2.17	47537	PPP2R1B
chr1	30062867	30066448	Normal,TNBC-ClaudinLow	2.17	-388031	LOC101928460
chr8	41894065	41895948	Normal	2.16	14499	KAT6A
chr8	101028955	101030993	LuminaB,LuminaA,TNBC-Basal	2.16	87880	RGS22
chr6	141816917	141818648	LuminaB,HER2	2.16	592154	NMBR
chr6	108544619	108545907	LuminaB	2.16	37201	SNX3
chr5	92171844	92173390	Normal	2.16	734432	NR2F1-AS1
chr5	125788845	125792236	Normal,TNBC-Basal	2.16	-10246	GRAMD3
chr4	43326761	43328293	Normal	2.16	432245	GRXCR1
chr4	165948472	165949882	TNBC-ClaudinLow	2.16	-3973	TRIM60
chr4	155385544	155386729	Normal	2.16	26741	DCHS2
chr4	127907312	127908559	Normal	2.16	-646151	INTU
chr22	27705390	27707538	LuminaB	2.16	407210	LINC01422
chr2	39756875	39758753	Normal	2.16	93258	LOC728730
chr16	88110070	88112025	LuminaB,LuminaA	2.16	23544	LOC400553
chr16	56880554	56887123	Normal,TNBC-Basal,TNBC-ClaudinLow	2.16	-8591	MIR138-2
chr12	105708626	105711973	Normal	2.16	-14114	C12orf75
chr11	124785253	124786642	TNBC-ClaudinLow	2.16	-3198	HEPN1
chr10	29770969	29772783	TNBC-ClaudinLow	2.16	62150	MIR604
chr10	126878129	126881451	TNBC-Basal	2.16	-30166	CTBP2
chr1	59593118	59595555	Normal,TNBC-Basal,TNBC-ClaudinLow	2.16	18143	HSD52
chr1	201971850	202007950	LuminaB,LuminaA,TNBC-Basal,HER2	2.16	10211	ELF3
chrX	24102140	24104134	TNBC-ClaudinLow	2.15	30073	EIF2S3
chr6	167052926	167054871	TNBC-ClaudinLow	2.15	-13172	RPS6KA2
chr4	68615649	68617756	Normal	2.15	5102	GNRHR
chr4	57884800	57887607	Normal,TNBC-ClaudinLow	2.15	41095	POLR2B
chr4	41061730	41065274	Normal	2.15	153133	APBB2
chr4	167238885	167241998	Normal,TNBC-ClaudinLow	2.15	446032	TLL1
chr3	57912880	57914978	Normal	2.15	-80197	FLNB
chr3	110287333	110288169	Normal,TNBC-Basal,TNBC-ClaudinLow	2.15	501055	PVRL3-AS1
chr20	3463197	3465463	Normal,TNBC-Basal,HER2	2.15	12666	ATRN
chr2	225030270	225031503	Normal	2.15	-126850	SERPINE2
chr2	223884223	223887466	LuminaB,LuminaA	2.15	-30803	KCNE4
chr19	51944037	51945424	TNBC-ClaudinLow	2.15	16978	SIGLEC8
chr14	57847282	57850542	Normal,TNBC-ClaudinLow	2.15	-8358	NAA30
chr12	97113328	97114793	LuminaB,TNBC-ClaudinLow	2.15	-186940	NEDD1
chr10	97006111	97009649	Normal,TNBC-ClaudinLow	2.15	43025	PDLIM1
chr10	5475611	5477179	Normal	2.15	-12118	NET1
chr10	116789863	116791237	LuminaB	2.15	36135	LOC102724589
chr1	44810508	44814579	Normal	2.15	8408	ERI3
chr1	24443510	24448174	Normal,TNBC-Basal	2.15	-7177	MYOM3
chr1	222716870	222718321	LuminaA	2.15	3849	HHIPL2
chr1	209675490	209679231	Normal	2.15	71883	MIR205
chr1	11198482	11200052	Normal	2.15	-4687	MTOR-AS1
chr9	131986260	131989054	Normal,TNBC-ClaudinLow	2.14	-47117	IER5L
chr7	42589114	42591157	Normal	2.14	155911	LINC01448
chr7	104685998	104687854	Normal	2.14	32290	KMT2E
chr6	132765246	132767925	Normal,TNBC-ClaudinLow	2.14	-43912	MOXD1
chr5	136356879	136359139	Normal	2.14	477009	SPOCK1
chr4	47857133	47859415	Normal	2.14	-18151	CORIN
chr4	166825787	166827981	Normal	2.14	32475	TLL1
chr4	110392308	110394036	Normal	2.14	-38199	SEC24B-AS1
chr3	70904892	70907554	Normal,TNBC-ClaudinLow	2.14	207851	FOXP1
chr20	13211128	13212835	Normal,TNBC-ClaudinLow	2.14	8353	ISM1-AS1
chr2	208743189	208744914	Normal	2.14	-109908	FZD5
chr2	169415214	169416994	Normal	2.14	-23348	MIR4774
chr2	167089921	167091944	Normal,TNBC-ClaudinLow	2.14	-85290	SCN1A
chr2	145184113	145185127	Normal	2.14	-92560	ZEB2-AS1
chr19	52702537	52705429	Normal	2.14	10929	PPP2R1A
chr19	47679236	47681445	Normal	2.14	46226	SAE1
chr15	58781829	58785465	TNBC-Basal	2.14	7287	LOC101928694
chr15	57295543	57296324	Normal	2.14	85101	TCF12
chr14	34549049	34553439	LuminaB,LuminaA,TNBC-ClaudinLow,HER2	2.14	-130960	EGLN3
chr13	23602100	23603920	LuminaB,LuminaA	2.14	-130690	BASP1P1
chr12	87798971	87801293	Normal	2.14	378356	MKRN9P
chr12	103031945	103033309	TNBC-ClaudinLow	2.14	-158249	IGF1
chr11	82564114	82566407	Normal,TNBC-ClaudinLow	2.14	46297	PRCP
chr10	112032672	112034555	Normal,TNBC-ClaudinLow	2.14	31094	SMNDC1
chr1	68444223	68446096	TNBC-ClaudinLow	2.14	71301	DIRAS3
chr1	32806502	32808529	TNBC-Basal	2.14	-5675	MARCKSL1
chr7	80819316	80821367	Normal	2.13	-271674	SEMA3C
chr7	114618960	114620638	HER2	2.13	57591	MDFIC
chr6	35800303	35802994	TNBC-ClaudinLow	2.13	28578	LHFPL5
chr6	163946949	163948208	Normal	2.13	111904	QKI
chr6	146156801	146158230	Normal	2.13	21504	LOC100507557
chr6	101458727	101459921	Normal,LuminaB	2.13	-130076	ASCC3
chr5	55335055	55336394	TNBC-ClaudinLow	2.13	44730	FLJ31104
chr5	38623789	38625834	LuminaB,LuminaA	2.13	-29304	LIFR
chr4	95895529	95896679	Normal	2.13	-21278	BMPR1B
chr4	90624579	90626896	Normal	2.13	-131814	SNCA-AS1
chr4	78848472	78850249	Normal	2.13	65556	MRPL1
chr3	58947386	58948465	Normal	2.13	87790	C3orf67
chr3	126491716	126494115	Normal	2.13	69853	CHCHD6
chr22	19978007	19980116	LuminaB,LuminaA,TNBC-Basal,HER2	2.13	25248	ARVCF
chr18	67847725	67850434	Normal,TNBC-ClaudinLow	2.13	23883	RTTN
chr18	61504203	61505982	Normal	2.13	-49846	SERPINB2
chr16	65308405	65309649	TNBC-Basal	2.13	-98551	LOC101927650
chr15	55829756	55831841	TNBC-ClaudinLow	2.13	-30366	DYX1C1
chr13	110035954	110038144	Normal,TNBC-Basal,TNBC-ClaudinLow	2.13	-15993	LINC00399
chr11	9190738	9192124	TNBC-ClaudinLow	2.13	75522	KRT8P41
chr1	87480299	87482297	TNBC-Basal	2.13	100964	HS2ST1
chr1	68808869	68811053	TNBC-Basal	2.13	105681	RPE65
chr1	201873337	201874868	Normal	2.13	16298	SHISA4
chr1	162198930	162200961	LuminaA,TNBC-Basal	2.13	73049	MIR4654
chr9	130972860	130974717	TNBC-Basal	2.12	-7126	CIZ1
chr7	82431927	82433445	TNBC-ClaudinLow	2.12	359511	PCLO
chr7	116427556	116430108	HER2	2.12	-73730	CAPZA2
chr6	170466467	170469888	LuminaB,LuminaA	2.12	-7688	LOC102724511
chr3	59558625	59561744	Normal	2.12	-524469	C3orf67
chr2	208789906	208791951	Normal	2.12	99356	PLEKHM3
chr2	122184588	122185638	Normal	2.12	-103342	RNU4ATAC
chr19	48787178	48788319	TNBC-ClaudinLow	2.12	10742	ZNF114
chr16	1804296	1805978	Normal	2.12	16573	NME3
chr13	114614742	114616909	Normal,TNBC-Basal,TNBC-ClaudinLow	2.12	16139	LINC00565
chr12	97928745	97932865	LuminaB,LuminaA	2.12	-26784	MIR135A2
chr11	60131091	60132018	LuminaB	2.12	-14403	MS4A7
chr11	12838976	12840987	Normal,TNBC-ClaudinLow	2.12	144013	TEAD1
chr11	101722940	101724066	LuminaB,LuminaA,HER2	2.12	-62242	KIAA1377
chr10	117872936	117874349	TNBC-ClaudinLow	2.12	158177	GFRA1
chr1	86287297	86290712	TNBC-Basal,HER2	2.12	-114888	ZNHIT6
chr1	85192321	85193516	Normal	2.12	-36678	SSX2IP
chr1	39812409	39813210	Normal	2.12	-62366	KIAA0754
chrX	13665557	13666760	TNBC-ClaudinLow	2.11	-5066	TCEANC
chr9	91520121	91521358	Normal	2.11	-85038	C9orf47
chr8	141068115	141069439	TNBC-Basal	2.11	-353478	KCNK9
chr7	94011219	94013072	Normal	2.11	-11727	COL1A2
chr7	134589345	134591150	Normal	2.11	14097	CALD1
chr7	105488839	105491567	Normal	2.11	26828	ATXN7L1
chr6	9480148	9487445	Normal,TNBC-ClaudinLow	2.11	831355	HULC
chr6	152811449	152813754	Normal,TNBC-ClaudinLow	2.11	110937	SYNE1-AS1
chr6	144755335	144756846	Normal,TNBC-ClaudinLow	2.11	143218	UTRN
chr6	116535871	116537667	Normal	2.11	38492	TSPYL4
chr4	57903085	57913914	Normal	2.11	63391	POLR2B
chr3	195889680	195893558	LuminaB,TNBC-Basal	2.11	22113	LINC00885
chr22	26153117	26157566	Normal,TNBC-ClaudinLow	2.11	17222	MYO18B
chr21	41515729	41517064	LuminaB,LuminaA	2.11	67962	MIR4760
chr21	35152547	35154090	Normal	2.11	134840	ATP5O
chr20	55161248	55168901	LuminaB,LuminaA,TNBC-Basal,HER2	2.11	-39283	TFAP2C
chr2	237123060	237124796	TNBC-ClaudinLow	2.11	-47276	GBX2
chr2	102367032	102370954	Normal,TNBC-Basal	2.11	54456	MAP4K4
chr18	72640150	72642032	LuminaA	2.11	280190	ZADH2
chr18	70785212	70786344	Normal	2.11	145955	LOC400655
chr18	27715105	27716973	Normal,TNBC-ClaudinLow	2.11	-162836	MIR302F
chr1	86569877	86571900	LuminaB	2.11	51233	COL24A1
chr1	178438778	178441551	Normal,TNBC-Basal	2.11	-42047	TEX35
chr8	8166723	8170828	Normal,TNBC-ClaudinLow	2.1	70569	SGK223
chr7	31013438	31015244	TNBC-Basal,TNBC-ClaudinLow	2.1	10706	GHRHR
chr7	111742063	111744819	TNBC-ClaudinLow	2.1	103021	DOCK4
chr6	143946699	143948531	TNBC-Basal	2.1	18299	PHACTR2
chr4	81094006	81095926	Normal,TNBC-ClaudinLow	2.1	-11457	PRDM8
chr2	37831420	37832420	TNBC-ClaudinLow	2.1	67422	CDC42EP3
chr2	216677540	216678831	Normal	2.1	30074	LINC00607
chr2	196476579	196479233	Normal,TNBC-Basal,TNBC-ClaudinLow	2.1	-43625	SLC39A10
chr18	58540823	58542104	Normal	2.1	-501462	MC4R
chr18	53213622	53214682	Normal	2.1	-36152	TCF4
chr18	34394733	34396013	Normal	2.1	-13706	KIAA1328
chr17	43318058	43319984	LuminaB	2.1	-6270	MAP3K14-AS1
chr17	42594676	42596299	TNBC-ClaudinLow	2.1	-14530	GPATCH8
chr14	39277283	39279011	LuminaB,LuminaA,TNBC-Basal,HER2	2.1	107939	LINC00639
chr12	80290261	80292957	Normal,TNBC-ClaudinLow	2.1	16082	PPP1R12A
chr1	85071535	85073901	HER2	2.1	13996	LINC01461
chr1	77414259	77417246	TNBC-ClaudinLow	2.1	82567	ST6GALNAC5
chr1	230941872	230944320	TNBC-Basal	2.1	48686	C1orf198
chr1	228558182	228560156	LuminaB,LuminaA,TNBC-Basal	2.1	25641	MIR6742
chr1	213292697	213294780	Normal	2.1	69164	RPS6KC1
chrX	64742379	64743778	Normal,TNBC-ClaudinLow	2.09	11608	LAS1L
chrX	22594662	22596469	Normal	2.09	304536	ZNF645
chr9	113201915	113204401	Normal	2.09	-102994	TXNDC8
chr7	82786768	82788546	HER2	2.09	4540	PCLO
chr7	38783644	38785874	Normal,TNBC-ClaudinLow	2.09	-58070	FAM183B
chr5	90227226	90228915	Normal	2.09	373454	GPR98
chr5	78600627	78602226	Normal	2.09	69502	JMY
chr5	107338253	107339646	Normal	2.09	-332353	EFNA5
chr4	105828053	105829438	LuminaA	2.09	-238286	TET2
chr3	159448869	159452982	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	2.09	35476	IQCJ-SCHIP1-AS1
chr21	38745260	38748950	Normal	2.09	7247	DYRK1A
chr2	73378805	73379758	TNBC-ClaudinLow	2.09	-39135	RAB11FIP5
chr2	222680820	222682817	Normal	2.09	-244808	EPHA4
chr2	191447177	191448897	Normal,TNBC-Basal	2.09	-48569	TMEM194B
chr2	19091690	19093252	Normal,TNBC-ClaudinLow	2.09	-321625	NT5C1B
chr18	24119295	24121819	Normal,TNBC-Basal	2.09	7943	KCTD1
chr17	57568823	57570061	LuminaB,LuminaA	2.09	34776	LINC01476
chr13	43874162	43876132	TNBC-ClaudinLow	2.09	-147840	ENOX1-AS2
chr13	41222893	41223877	Normal	2.09	17349	FOXO1
chr13	100849224	100850701	Normal	2.09	108694	PCCA
chr12	56456049	56457718	Normal	2.09	-16925	ERBB3
chr10	6835973	6837174	Normal	2.09	15014	LINC00707
chr1	24719438	24721490	Normal,TNBC-ClaudinLow	2.09	19798	STPG1
chr1	172935134	172940455	Normal,TNBC-ClaudinLow	2.09	82309	TNFSF18
chrX	121712390	121713790	Normal	2.08	-605005	GRIA3
chr8	49220354	49222648	Normal,TNBC-ClaudinLow	2.08	-242625	LOC101929268
chr8	29471916	29473149	TNBC-ClaudinLow	2.08	133093	LINC00589
chr7	30245256	30247558	Normal,TNBC-Basal	2.08	71856	MTURN
chr6	86379035	86380631	Normal	2.08	7253	SNORD50A
chr4	90394248	90395384	Normal	2.08	-165655	GPRIN3
chr4	25818423	25819660	TNBC-ClaudinLow	2.08	45612	SEL1L3
chr3	42142125	42145047	Normal,TNBC-ClaudinLow	2.08	10841	TRAK1
chr2	151315085	151317406	Normal	2.08	27964	RND3
chr17	17058347	17061027	Normal	2.08	49959	PLD6
chr12	10592126	10592877	Normal,TNBC-ClaudinLow	2.08	-3909	KLRC2
chr12	104214005	104216924	Normal	2.08	19511	NT5DC3
chr10	30989341	30992188	TNBC-ClaudinLow	2.08	9562	SVILP1
chr1	55597317	55598570	Normal	2.08	83096	USP24
chrX	64991746	64993684	Normal	2.07	105205	MSN
chrX	18900602	18902865	LuminaB	2.07	-6680	PHKA2-AS1
chr8	142103079	142107200	TNBC-Basal	2.07	-33580	DENND3
chr8	134678425	134680788	LuminaB	2.07	-95423	ST3GAL1
chr7	105127680	105129320	Normal,TNBC-ClaudinLow	2.07	34185	PUS7
chr6	158581866	158583018	Normal	2.07	6870	SERAC1
chr5	66228133	66229937	Normal	2.07	-25662	MAST4
chr5	132039893	132041589	Normal	2.07	31064	IL4
chr4	14529814	14532084	TNBC-ClaudinLow	2.07	417358	LINC01085
chr21	36286655	36289481	Normal	2.07	-27081	RUNX1
chr2	227353671	227355776	Normal,TNBC-ClaudinLow	2.07	168786	MIR5702
chr16	11101949	11106042	Normal	2.07	65651	CLEC16A
chr15	68405641	68407569	Normal	2.07	60034	PIAS1
chr14	94586732	94588468	Normal	2.07	8357	IFI27L2
chr13	28210798	28214219	Normal	2.07	16593	POLR1D
chr12	114862305	114864280	LuminaB	2.07	-17045	TBX5
chr11	84898300	84899432	LuminaB	2.07	-264401	DLG2
chr11	80397952	80401692	LuminaA	2.07	74024	LOC101928944
chr11	2864648	2868389	TNBC-ClaudinLow	2.07	-24744	KCNQ1DN
chr11	12829471	12831760	Normal	2.07	134647	TEAD1
chr1	194974189	194975718	LuminaB	2.07	0	none
chrX	18592076	18594025	Normal	2.06	97173	RS1
chrX	16229986	16230702	TNBC-ClaudinLow	2.06	44741	MAGEB17
chr9	125661871	125664204	Normal,TNBC-Basal,TNBC-ClaudinLow	2.06	4525	RC3H2
chr8	128099903	128101196	Normal,TNBC-Basal,HER2	2.06	-6083	PCAT2
chr8	104214439	104216035	Normal	2.06	-30869	BAALC-AS1
chr7	128220464	128221962	Normal,TNBC-ClaudinLow	2.06	-60081	LINC01000
chr6	124234654	124236273	Normal	2.06	110473	NKAIN2
chr5	61162194	61163300	Normal	2.06	-131222	LOC100506526
chr4	157435725	157437084	TNBC-ClaudinLow	2.06	456142	PDGFC
chr3	70920789	70922344	TNBC-ClaudinLow	2.06	192508	FOXP1
chr22	24881417	24884325	Normal	2.06	7912	ADORA2A-AS1
chr20	60783050	60785547	LuminaB,LuminaA	2.06	11025	HRH3
chr2	70767319	70770125	Normal,TNBC-Basal,TNBC-ClaudinLow	2.06	12425	TGFA
chr2	13111197	13112370	Normal	2.06	35355	LOC100506474
chr16	53180453	53182723	Normal	2.06	92644	CHD9
chr13	63758286	63759227	TNBC-ClaudinLow	2.06	143471	LINC00376
chr12	60043890	60047016	Normal	2.06	-37664	SLC16A7
chr11	62216391	62217470	TNBC-Basal	2.06	30424	SCGB1A1
chr10	62587402	62588930	Normal,TNBC-ClaudinLow	2.06	49955	CDK1
chr1	43692112	43694149	TNBC-ClaudinLow	2.06	-42534	TMEM125
chr1	25676002	25679976	Normal,TNBC-Basal,TNBC-ClaudinLow	2.06	13201	TMEM50A
chr1	217776855	217780135	LuminaA	2.06	25949	GPATCH2
chr1	17274172	17276447	Normal,TNBC-Basal,HER2	2.06	26865	CROCC
chr1	146632338	146635533	Normal	2.06	10233	PRKAB2
chr1	11085368	11086961	Normal	2.06	13486	TARDBP
chr9	116590211	116591149	Normal,TNBC-ClaudinLow	2.05	-47881	ZNF618
chr8	28129666	28131521	TNBC-ClaudinLow	2.05	-44055	PNOC
chr8	103394743	103396322	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	2.05	29385	UBR5
chr7	34125071	34129022	LuminaA,TNBC-ClaudinLow	2.05	182524	BMPER
chr6	165929088	165930099	TNBC-ClaudinLow	2.05	145995	PDE10A
chr6	153262477	153264953	HER2	2.05	40488	FBXO5
chr4	108178846	108180768	Normal	2.05	-222354	DKK2
chr3	5733119	5735559	HER2	2.05	-442399	MIR4790
chr3	46232118	46233926	LuminaB	2.05	16810	CCR1
chr20	48256801	48261354	TNBC-Basal,HER2	2.05	71344	B4GALT5
chr2	133383380	133387212	HER2	2.05	43185	LYPD1
chr19	49192505	49194223	HER2	2.05	-5863	FUT2
chr18	65093114	65094194	Normal,TNBC-ClaudinLow	2.05	-90128	LOC643542
chr15	31307760	31309129	Normal	2.05	-24637	MTMR10
chr15	31253459	31255204	Normal	2.05	29476	MTMR10
chr14	87479844	87480904	Normal	2.05	108253	LOC283585
chr14	35815689	35817778	LuminaB,LuminaA,TNBC-Basal,HER2	2.05	55211	PSMA6
chr12	50989951	50993529	Normal	2.05	92973	DIP2B
chr12	32747993	32749263	Normal	2.05	-83505	DNM1L
chr12	115271326	115274027	Normal,TNBC-ClaudinLow	2.05	-150707	TBX3
chr11	46181137	46182393	TNBC-Basal	2.05	-11740	LOC101928894
chr11	12920553	12924364	Normal,TNBC-ClaudinLow	2.05	88637	LINC00958
chr1	779448	780493	LuminaB	2.05	16793	LINC01128
chr1	33885674	33888361	Normal,TNBC-ClaudinLow	2.05	-45823	PHC2
chr1	215339328	215341636	Normal,LuminaA	2.05	83923	KCNK2
chr1	185601491	185603064	Normal	2.05	-4657	LINC01350
chrX	103194973	103196505	TNBC-ClaudinLow	2.04	-21460	TMSB15B
chr9	76141937	76144585	LuminaB	2.04	376481	ANXA1
chr7	115416209	115416756	HER2	2.04	191885	TFEC
chr6	109041522	109043454	Normal,TNBC-Basal	2.04	-30368	LINC00222
chr5	20032276	20034349	LuminaA	2.04	-44959	CDH18
chr4	114887311	114893035	Normal	2.04	10705	ARSJ
chr3	184344780	184345671	TNBC-Basal	2.04	65639	EPHB3
chr21	36674279	36676998	Normal,TNBC-ClaudinLow	2.04	-254043	RUNX1
chr2	528475	530032	TNBC-Basal	2.04	148186	TMEM18
chr2	27126167	27127588	TNBC-Basal	2.04	55586	DPYSL5
chr19	490936	491684	HER2	2.04	-5179	MADCAM1
chr18	52593385	52595230	Normal	2.04	30972	CCDC68
chr13	98673305	98675680	Normal,TNBC-Basal	2.04	68564	IPO5
chr11	114229153	114230788	Normal,TNBC-ClaudinLow	2.04	20791	LOC101928940
chr1	53116894	53118800	Normal	2.04	18782	FAM159A
chr1	192870123	192871936	Normal	2.04	46358	LINC01032
chr8	10049241	10050776	Normal,TNBC-ClaudinLow	2.03	96947	MSRA
chr7	43238314	43240161	Normal,TNBC-ClaudinLow	2.03	48744	MIR3943
chr7	127679463	127683179	HER2	2.03	-10319	LRRC4
chr6	71682327	71683558	TNBC-ClaudinLow	2.03	-16154	B3GAT2
chr6	49490445	49493681	LuminaB,LuminaA	2.03	24393	GLYATL3
chr6	35896378	35899267	LuminaB	2.03	-8865	SRPK1
chr5	141499067	141500975	Normal	2.03	11698	NDFIP1
chr5	100510859	100512482	LuminaB,LuminaA	2.03	-272681	ST8SIA4
chr4	83568980	83570794	Normal	2.03	-27297	LINC00575
chr4	129195598	129197991	Normal	2.03	13190	PGRMC2
chr3	51719603	51723131	Normal,TNBC-Basal	2.03	15725	TEX264
chr20	737471	739454	LuminaB	2.03	10766	SLC52A3
chr20	47616296	47618227	Normal	2.03	45332	CSE1L-AS1
chr20	4613449	4615735	Normal,TNBC-ClaudinLow	2.03	-52204	PRNP
chr2	113373598	113375967	HER2	2.03	26975	FLJ42351
chr19	7636811	7638739	LuminaB,LuminaA,TNBC-Basal,HER2	2.03	-23012	CAMSAP3
chr16	57110868	57113475	TNBC-Basal	2.03	-14283	CPNE2
chr14	101783413	101788225	LuminaB,LuminaA	2.03	88440	LINC00524
chr11	57773775	57775146	TNBC-ClaudinLow	2.03	-16892	OR9Q1
chr10	30909627	30917383	LuminaB	2.03	5142	LYZL2
chr10	119022579	119025508	LuminaB,LuminaA	2.03	23460	SLC18A2
chr1	23440080	23441969	Normal	2.03	54327	LUZP1
chr1	189575306	189577956	Normal	2.03	870128	BRINP3
chr7	90810541	90813417	Normal	2.02	-81803	FZD1
chr6	85534482	85535925	Normal,TNBC-ClaudinLow	2.02	-61249	TBX18
chr6	3944899	3945921	Normal,TNBC-Basal,TNBC-ClaudinLow	2.02	-76158	PRPF4B
chr6	158886026	158888760	LuminaB	2.02	-70074	TMEM181
chr5	136824780	136828715	Normal	2.02	8271	SPOCK1
chr3	195559589	195564761	TNBC-Basal	2.02	-23331	MUC4
chr22	21298913	21301831	Normal,TNBC-ClaudinLow	2.02	-11007	LOC101928891
chr2	209227586	209229560	Normal	2.02	4005	PTH2R
chr2	161422316	161424310	Normal	2.02	-72995	RBMS1
chr19	45283835	45286632	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	2.02	4108	CBLC
chr19	11931591	11932537	TNBC-ClaudinLow	2.02	6958	ZNF440
chr19	10283332	10285623	TNBC-Basal,TNBC-ClaudinLow	2.02	21278	DNMT1
chr17	5334644	5335939	Normal	2.02	7180	C1QBP
chr16	4195951	4198562	LuminaB,LuminaA	2.02	-31070	ADCY9
chr15	74665161	74667286	LuminaA	2.02	-6142	CYP11A1
chr15	71160267	71161422	Normal	2.02	-14240	LARP6
chr14	79481368	79484393	Normal	2.02	-262801	NRXN3
chr14	75960559	75962268	TNBC-ClaudinLow	2.02	-27370	BATF
chr14	40473630	40474782	LuminaA	2.02	-572502	FBXO33
chr13	110873826	110875152	Normal,TNBC-ClaudinLow	2.02	85007	COL4A1
chr11	120017268	120019659	TNBC-Basal	2.02	-9600	TRIM29
chr1	47702687	47704026	TNBC-Basal	2.02	-5349	TAL1
chr1	198222185	198223659	Normal	2.02	96815	NEK7
chr1	10310550	10314597	Normal	2.02	41810	KIF1B
chr9	75166269	75174230	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	2.01	33533	TMC1
chr8	144934978	144936106	TNBC-Basal	2.01	-12396	NRBP2
chr8	128360461	128362242	TNBC-Basal,TNBC-ClaudinLow,HER2	2.01	-51292	CCAT2
chr7	8329857	8332368	LuminaB,LuminaA	2.01	-28870	ICA1
chr7	74041209	74044264	TNBC-Basal	2.01	-29254	GTF2I
chr7	114637570	114638376	HER2	2.01	75765	MDFIC
chr6	35011812	35013297	Normal	2.01	96633	TCP11
chr6	159301615	159303429	LuminaB	2.01	-7096	C6orf99
chr6	129943550	129945342	Normal	2.01	86924	ARHGAP18
chr4	96994601	96995424	Normal	2.01	233774	PDHA2
chr4	88274578	88276422	Normal	2.01	-31442	HSD17B13
chr20	33357705	33361169	Normal	2.01	53996	NCOA6
chr2	58324614	58327150	Normal	2.01	52036	VRK2
chr2	216311531	216313085	Normal	2.01	-6121	LOC102724849
chr2	213586951	213588777	Normal	2.01	-184512	ERBB4
chr2	173146230	173149028	Normal,TNBC-ClaudinLow	2.01	-144684	ITGA6
chr2	121709728	121711048	TNBC-ClaudinLow	2.01	155522	GLI2
chr16	60681584	60684276	Normal	2.01	-289263	LOC729159
chr15	44319976	44323450	TNBC-ClaudinLow	2.01	-151344	PIN4P1
chr14	86038365	86040534	Normal,TNBC-ClaudinLow	2.01	42962	FLRT2
chr14	81829393	81831006	Normal	2.01	63357	STON2
chr10	100226921	100228417	Normal,LuminaB,LuminaA,TNBC-ClaudinLow	2.01	-20965	HPS1
chr1	46082761	46084207	TNBC-ClaudinLow	2.01	6247	CCDC17
chr1	200762676	200765877	Normal	2.01	55591	CAMSAP2
chrX	43823405	43825198	Normal,TNBC-ClaudinLow	2	8620	NDP
chrX	39818964	39821423	LuminaB	2	136526	BCOR
chrX	149327426	149330335	TNBC-ClaudinLow	2	-67358	MIR2114
chr8	16694909	16696227	Normal,TNBC-ClaudinLow	2	164106	FGF20
chr8	16483295	16484145	TNBC-ClaudinLow	2	375954	FGF20
chr8	132934110	132937796	Normal,TNBC-Basal	2	19598	EFR3A
chr7	17871987	17874397	Normal	2	106939	SNX13
chr5	121593112	121596740	Normal	2	-52893	SNCAIP
chr4	112427363	112429234	Normal	2	-638254	C4orf32
chr3	31936353	31937896	Normal	2	-86141	ZNF860
chr22	44877937	44879206	TNBC-ClaudinLow	2	15434	LDOC1L
chr22	41746582	41748778	TNBC-Basal,HER2	2	-15656	TEF
chr22	41665096	41666226	HER2	2	16360	RANGAP1
chr21	35078296	35080808	Normal,TNBC-ClaudinLow	2	64769	ITSN1
chr19	7178620	7180544	LuminaB	2	110112	ZNF557
chr17	15916651	15918607	Normal,TNBC-ClaudinLow	2	-14623	ZSWIM7
chr14	69520457	69523151	TNBC-ClaudinLow	2	75406	ACTN1-AS1
chr14	28195619	28197208	LuminaA	2	114620	LINC00645
chr13	88730317	88731448	Normal	2	-268107	LINC00397
chr13	41050040	41051598	Normal	2	4324	LINC00598
chr13	100808440	100810246	Normal,TNBC-ClaudinLow	2	68075	PCCA
chr1	51819906	51821363	LuminaB	2	-9846	TTC39A
chr1	202303496	202305730	LuminaB,LuminaA	2	6481	UBE2T
chrX	96276038	96277758	Normal,TNBC-ClaudinLow	1.99	137992	RPA4
chr8	17193279	17194958	Normal,TNBC-ClaudinLow	1.99	76922	MTMR7
chr4	155129378	155130751	TNBC-ClaudinLow	1.99	182385	DCHS2
chr4	10089197	10090849	Normal	1.99	-9707	MIR3138
chr3	47138419	47139238	Normal,TNBC-ClaudinLow	1.99	66639	SETD2
chr3	196386602	196388688	LuminaB,LuminaA,TNBC-Basal,HER2	1.99	20990	NRROS
chr2	18766081	18767986	Normal	1.99	3813	NT5C1B
chr2	172559731	172561644	Normal	1.99	16506	DYNC1I2
chr19	43491243	43492727	Normal,TNBC-ClaudinLow	1.99	38646	PSG11
chr19	13178633	13183616	TNBC-Basal	1.99	32850	LYL1
chr18	61545671	61546766	TNBC-ClaudinLow	1.99	-8720	SERPINB2
chr17	44130935	44132314	Normal	1.99	55009	STH
chr16	53836499	53844718	Normal,TNBC-Basal	1.99	102734	FTO
chr13	73010876	73012200	TNBC-ClaudinLow	1.99	-290348	BORA
chr12	95558169	95559515	Normal	1.99	52398	FGD6
chr12	81535502	81538858	LuminaB,LuminaA	1.99	-14986	MIR4699
chr11	29349978	29351504	Normal,TNBC-ClaudinLow	1.99	687836	KCNA4
chr11	128286956	128288221	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	1.99	104617	ETS1
chr10	112866146	112870747	LuminaB,LuminaA	1.99	31657	ADRA2A
chr1	65089313	65090813	Normal	1.99	44534	MIR4794
chr1	159218456	159220613	Normal	1.99	-39969	FCER1A
chrX	47482575	47483865	LuminaB,LuminaA,TNBC-ClaudinLow	1.98	-3964	SYN1
chr7	73698685	73700022	TNBC-ClaudinLow	1.98	-4451	CLIP2
chr6	83007032	83008739	Normal,TNBC-Basal,TNBC-ClaudinLow	1.98	-50414	IBTK
chr3	33843793	33845046	Normal,LuminaB,LuminaA,HER2	1.98	4357	PDCD6IP
chr3	153030970	153032624	Normal	1.98	151797	RAP2B
chr19	16444370	16445160	TNBC-ClaudinLow	1.98	9115	KLF2
chr15	39753868	39756290	Normal	1.98	-118200	THBS1
chr14	95677791	95680046	LuminaB,LuminaA	1.98	-54571	DICER1
chr10	79577711	79580898	Normal	1.98	107044	DLG5
chr1	40732129	40734639	Normal	1.98	9663	ZMPSTE24
chr1	115919642	115921136	Normal	1.98	-39532	NGF
chr1	101767609	101768491	TNBC-ClaudinLow	1.98	-21342	LINC01307
chr9	93760233	93764753	Normal,TNBC-ClaudinLow,HER2	1.97	74921	LOC100129316
chr9	91447747	91451509	Normal	1.97	-88808	MIR4289
chr8	26013418	26015940	Normal,TNBC-ClaudinLow	1.97	-112039	EBF2
chr7	77349773	77351280	Normal	1.97	-23864	APTR
chr7	77278102	77280751	TNBC-ClaudinLow	1.97	-46316	RSBN1L
chr7	137941398	137943366	TNBC-ClaudinLow	1.97	133879	MIR4468
chr3	155143946	155144942	Normal	1.97	-132955	LOC100507537
chr3	124509730	124513757	Normal,TNBC-Basal	1.97	62531	UMPS
chr2	9878732	9880309	TNBC-Basal,TNBC-ClaudinLow	1.97	-104050	TAF1B
chr2	235633566	235635501	Normal,TNBC-Basal,TNBC-ClaudinLow	1.97	-226094	SH3BP4
chr2	233609142	233610545	LuminaB	1.97	10717	GIGYF2
chr2	233285062	233286346	LuminaB,LuminaA,TNBC-Basal	1.97	14153	ALPPL2
chr2	183779302	183781742	Normal,TNBC-ClaudinLow	1.97	-49024	FRZB
chr19	53150906	53152702	Normal,TNBC-ClaudinLow	1.97	-10160	ZNF83
chr16	81770385	81773468	TNBC-Basal	1.97	-40936	PLCG2
chr12	94311141	94313061	TNBC-ClaudinLow	1.97	-180502	LOC101928731
chr12	52555994	52574095	Normal,LuminaB,HER2	1.97	20740	KRT80
chr11	63700400	63703946	HER2	1.97	-4268	NAA40
chr11	132909873	132911486	TNBC-ClaudinLow	1.97	-97642	OPCML
chr10	37444764	37446786	LuminaB	1.97	30991	ANKRD30A
chr10	113962415	113963574	Normal,TNBC-ClaudinLow	1.97	-19457	GPAM
chr1	6646974	6648777	Normal	1.97	7825	ZBTB48
chr7	36167598	36169341	Normal,TNBC-Basal,TNBC-ClaudinLow	1.96	-24366	EEPD1
chr7	137386961	137389593	Normal,TNBC-ClaudinLow	1.96	143332	DGKI
chr6	21402091	21403635	Normal	1.96	109260	LINC00581
chr6	170464595	170466394	LuminaB,LuminaA	1.96	-10371	LOC102724511
chr5	142438488	142442595	Normal,HER2	1.96	-192066	ARHGAP26-AS1
chr4	57847390	57849133	TNBC-ClaudinLow	1.96	3153	POLR2B
chr3	83663756	83669678	LuminaB,LuminaA	1.96	0	none
chr3	42072581	42075394	Normal,TNBC-Basal,TNBC-ClaudinLow	1.96	-58758	TRAK1
chr3	195500447	195502291	TNBC-Basal	1.96	37475	MUC4
chr20	10963047	10964572	Normal	1.96	-73889	LOC101929413
chr18	61159209	61160936	Normal	1.96	15929	SERPINB5
chr16	77938425	77940561	LuminaB,LuminaA,HER2	1.96	-116949	CLEC3A
chr16	22363919	22366236	Normal	1.96	20861	CDR2
chr15	95712789	95714291	LuminaA	1.96	156789	LINC01197
chr15	49051308	49052198	Normal	1.96	51590	CEP152
chr13	24543642	24545025	LuminaB,LuminaA	1.96	-9431	SPATA13
chr11	108542713	108544360	Normal	1.96	7785	DDX10
chr10	28361348	28362669	Normal,TNBC-ClaudinLow	1.96	-74024	ARMC4
chr10	19534108	19537534	LuminaA	1.96	198122	MALRD1
chr10	118507348	118508987	Normal	1.96	-6082	HSPA12A
chr10	102682490	102684291	Normal	1.96	11065	FAM178A
chr1	90073233	90075417	Normal	1.96	24128	FLJ27354
chr1	52467270	52468327	TNBC-ClaudinLow	1.96	-11362	RAB3B
chr1	200806652	200808486	Normal	1.96	-34513	GPR25
chr1	184873540	184876259	LuminaB,LuminaA	1.96	68819	FAM129A
chr1	177944437	177945300	Normal	1.96	-5818	SEC16B
chrX	102817072	102817891	Normal,TNBC-ClaudinLow	1.95	-13677	TCEAL4
chr9	111148633	111150402	Normal	1.95	468758	ACTL7B
chr6	26341748	26343465	TNBC-ClaudinLow	1.95	-22780	BTN3A2
chr6	160668852	160670911	Normal,TNBC-ClaudinLow	1.95	10082	SLC22A2
chr6	137951799	137953759	TNBC-Basal	1.95	-34003	LOC102723649
chr5	74643788	74644802	Normal	1.95	11303	HMGCR
chr5	53946629	53948208	TNBC-Basal,HER2	1.95	51734	LOC102467080
chr4	148471049	148473037	Normal,TNBC-ClaudinLow	1.95	-66495	TMEM184C
chr2	7987099	7989008	Normal,TNBC-Basal	1.95	51733	LOC101929551
chr2	74858721	74860466	TNBC-Basal	1.95	15571	M1AP
chr2	41941986	41943922	LuminaB	1.95	-161740	LOC388942
chr2	180402308	180404240	Normal	1.95	24041	ZNF385B
chr2	179136217	179137305	Normal	1.95	-48209	OSBPL6
chr2	112291168	112293805	Normal,TNBC-Basal,TNBC-ClaudinLow	1.95	-39794	MIR4435-1HG
chr19	18019347	18021213	TNBC-Basal	1.95	-23543	CCDC124
chr16	78325765	78328469	LuminaA,TNBC-Basal,HER2	1.95	193808	WWOX
chr12	80237930	80239515	Normal,TNBC-ClaudinLow	1.95	68969	PPP1R12A
chr12	12393024	12394765	TNBC-Basal	1.95	25917	LRP6
chr11	36355125	36356087	Normal,TNBC-ClaudinLow	1.95	37882	PRR5L
chr11	116338365	116339764	HER2	1.95	304650	BUD13
chr10	44960166	44962935	LuminaB	1.95	-81005	CXCL12
chr10	37489310	37490241	LuminaB	1.95	74991	ANKRD30A
chr1	192861267	192863288	Normal	1.95	55110	LINC01032
chr1	15115745	15117338	Normal,TNBC-ClaudinLow	1.95	-134083	KAZN
chrX	74371513	74372537	Normal,TNBC-ClaudinLow	1.94	4150	ABCB7
chrX	140527013	140529109	Normal	1.94	-62781	SPANXA2-OT1
chr9	127995299	127996400	Normal,TNBC-ClaudinLow	1.94	7817	HSPA5
chr9	117662685	117664824	Normal,TNBC-ClaudinLow	1.94	29121	TNFSF8
chr7	19063531	19064708	Normal,TNBC-ClaudinLow	1.94	93176	TWIST1
chr6	20453361	20457333	Normal,TNBC-Basal	1.94	51438	E2F3
chr5	95309125	95310270	TNBC-ClaudinLow	1.94	-11922	ELL2
chr4	82347829	82349144	Normal	1.94	44596	RASGEF1B
chr4	111436374	111438034	Normal	1.94	39976	ENPEP
chr3	31941278	31942599	Normal	1.94	-81327	ZNF860
chr3	135725639	135727452	TNBC-Basal	1.94	-15031	PPP2R3A
chr3	119588747	119591650	TNBC-Basal	1.94	88642	NR1I2
chr20	21154257	21156606	Normal	1.94	43496	KIZ-AS1
chr2	181489579	181490819	Normal,TNBC-ClaudinLow	1.94	-66631	SCHLAP1
chr2	151765137	151766385	Normal	1.94	280351	LOC101929282
chr17	54944472	54946483	LuminaB,LuminaA	1.94	16797	MTVR2
chr17	17934720	17937080	Normal,TNBC-Basal,TNBC-ClaudinLow	1.94	6580	ATPAF2
chr14	31376179	31377162	Normal	1.94	-17656	LOC100506071
chr14	30726178	30727473	Normal	1.94	-301503	G2E3
chr14	30364392	30365775	LuminaB,LuminaA	1.94	31816	PRKD1
chr12	53278384	53280377	LuminaB,LuminaA,HER2	1.94	19488	KRT8
chr11	112125410	112126816	Normal,TNBC-ClaudinLow	1.94	5470	PLET1
chr1	27807998	27809932	Normal	1.94	7713	WASF2
chrX	3436205	3437762	Normal,TNBC-ClaudinLow	1.93	-140544	PRKX-AS1
chr9	20236006	20236858	Normal	1.93	174804	MIR4473
chr7	6869234	6870698	TNBC-ClaudinLow	1.93	-4040	CCZ1B
chr6	37888271	37891739	LuminaB	1.93	102699	ZFAND3
chr6	155934442	155936903	HER2	1.93	-158635	NOX3
chr6	113705342	113707594	Normal	1.93	264809	LOC101927686
chr5	58393261	58396781	Normal,TNBC-ClaudinLow	1.93	-59682	PDE4D
chr22	27280105	27286455	Normal,HER2	1.93	-15974	LINC01422
chr21	22640089	22641188	LuminaB,LuminaA	1.93	-17183	RNU6-67P
chr2	217704584	217705480	LuminaB,LuminaA	1.93	19750	TNP1
chr2	191718059	191719575	Normal	1.93	-26729	GLS
chr2	177177551	177179725	Normal,TNBC-ClaudinLow	1.93	44516	MTX2
chr16	85308592	85312480	LuminaB,LuminaA	1.93	-6027	LINC00311
chr13	22161171	22163658	TNBC-ClaudinLow	1.93	15941	MICU2
chr11	12848074	12853447	Normal,LuminaB,LuminaA,HER2	1.93	154792	TEAD1
chr9	138301010	138303493	LuminaB,LuminaA	1.92	61844	PPP1R26-AS1
chr9	112843376	112844894	Normal,TNBC-Basal,TNBC-ClaudinLow	1.92	33258	AKAP2
chr9	110569041	110570581	Normal,TNBC-ClaudinLow	1.92	-317764	KLF4
chr7	138123898	138125137	TNBC-ClaudinLow	1.92	-20561	TRIM24
chr6	46855652	46856819	Normal,TNBC-ClaudinLow	1.92	-14972	LOC101926962
chr5	72167030	72168207	Normal	1.92	-6799	MIR4804
chr5	142433059	142435503	TNBC-Basal	1.92	-185806	ARHGAP26-AS1
chr4	8393625	8396111	Normal,TNBC-ClaudinLow	1.92	47584	ACOX3
chr4	187750250	187752210	Normal,TNBC-ClaudinLow	1.92	-106243	FAT1
chr3	78070706	78073457	LuminaB,LuminaA	1.92	924919	ROBO2
chr3	188248107	188250083	Normal	1.92	37359	LPP-AS1
chr22	46811541	46814002	TNBC-Basal	1.92	81474	TRMU
chr2	384523	387321	TNBC-Basal	1.92	-97614	FAM150B
chr2	192560461	192561794	Normal	1.92	18266	NABP1
chr2	189675526	189677379	Normal,TNBC-ClaudinLow	1.92	-21621	DIRC1
chr19	45234163	45236709	LuminaB,LuminaA,TNBC-Basal,HER2	1.92	-16541	BCL3
chr19	10834045	10836184	LuminaB,LuminaA,TNBC-Basal	1.92	6035	MIR638
chr15	85899203	85903767	Normal,HER2	1.92	-22361	AKAP13
chr15	74206116	74209397	LuminaB,LuminaA	1.92	-11032	LOXL1
chr14	37169229	37170669	LuminaB,LuminaA,HER2	1.92	43177	PAX9
chr13	99190768	99197473	TNBC-Basal	1.92	-19741	STK24
chr13	50180721	50181421	Normal,LuminaB,LuminaA,TNBC-ClaudinLow	1.92	-21352	RCBTB1
chr13	43921582	43923185	Normal	1.92	-100604	ENOX1-AS2
chr12	96864945	96866096	Normal	1.92	-71154	CDK17
chr11	120685517	120687982	LuminaB,LuminaA,HER2	1.92	-208053	TBCEL
chr11	110306334	110307753	Normal	1.92	6383	FDX1
chr10	13880791	13882924	Normal,TNBC-ClaudinLow	1.92	-234425	LOC101928453
chr1	234449995	234452452	Normal,TNBC-Basal,TNBC-ClaudinLow	1.92	9011	MIR4671
chr1	173170173	173172640	Normal,TNBC-ClaudinLow	1.92	3291	TNFSF4
chr1	11767338	11768561	LuminaB,LuminaA	1.92	16169	DRAXIN
chr8	6334329	6335540	Normal	1.91	70822	MCPH1
chr8	61935183	61937017	LuminaB,TNBC-ClaudinLow	1.91	-55793	LOC100130298
chr7	157045695	157049315	LuminaA	1.91	-82204	DNAJB6
chr5	81929013	81930012	Normal	1.91	-206461	MIR3977
chr5	71123382	71124958	TNBC-ClaudinLow	1.91	109181	CARTPT
chr5	52698450	52700734	TNBC-ClaudinLow	1.91	-76671	FST
chr4	96076677	96077837	Normal	1.91	64616	BMPR1B
chr4	57953761	57956643	Normal,TNBC-ClaudinLow	1.91	-20725	IGFBP7-AS1
chr3	29243244	29244576	Normal,TNBC-ClaudinLow	1.91	78520	RBMS3-AS3
chr22	32941777	32943471	TNBC-Basal	1.91	71401	FBXO7
chr2	63225115	63228064	Normal,TNBC-Basal	1.91	48257	LOC100132215
chr2	191735730	191737465	TNBC-ClaudinLow	1.91	-8949	GLS
chr18	53388331	53389583	HER2	1.91	-85733	TCF4
chr17	65515562	65516530	LuminaB,LuminaA	1.91	142650	PITPNC1
chr17	21271859	21272951	TNBC-Basal,TNBC-ClaudinLow	1.91	-7293	KCNJ12
chr15	51099358	51103218	LuminaA	1.91	-43378	SPPL2A
chr13	96148294	96150980	TNBC-Basal	1.91	36527	CLDN10-AS1
chr12	92079514	92082317	Normal	1.91	454574	C12orf79
chr11	12475391	12477501	Normal	1.91	77421	PARVA
chr10	74873147	74874685	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	1.91	3784	NUDT13
chr10	47694190	47699653	TNBC-Basal	1.91	38689	ANTXRL
chr10	126156740	126158254	TNBC-Basal	1.91	7157	LHPP
chr1	213045771	213046816	Normal	1.91	14697	FLVCR1
chr9	133957162	133959433	TNBC-Basal,TNBC-ClaudinLow	1.9	-13565	AIF1L
chr7	148636447	148640366	TNBC-ClaudinLow	1.9	-56965	EZH2
chr7	111467250	111469187	Normal	1.9	19658	DOCK4-AS1
chr5	6494794	6497234	LuminaB,LuminaA	1.9	47279	UBE2QL1
chr5	37453914	37455132	Normal,TNBC-ClaudinLow	1.9	75112	WDR70
chr5	10577441	10579024	TNBC-Basal,TNBC-ClaudinLow	1.9	13798	ANKRD33B
chr4	95585779	95589002	LuminaA	1.9	91294	BMPR1B-AS1
chr4	74767426	74768981	Normal,TNBC-ClaudinLow	1.9	33095	CXCL1
chr4	1170601	1172772	Normal,TNBC-Basal	1.9	-4687	SPON2
chr3	23313361	23316406	Normal	1.9	-60742	MIR548AC
chr3	178468278	178469688	TNBC-Basal,HER2	1.9	192496	KCNMB2
chr3	176946185	176948772	TNBC-Basal	1.9	-32430	TBL1XR1
chr20	39296586	39299998	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	1.9	19588	MAFB
chr2	214088308	214089688	Normal	1.9	59931	LOC100130451
chr2	138631857	138632824	LuminaA	1.9	53162	LOC101928273
chr15	33073673	33075009	TNBC-ClaudinLow	1.9	-63275	LOC100131315
chr14	66469216	66471084	LuminaB,LuminaA,HER2	1.9	-482938	LINC00238
chr12	116700938	116708571	Normal,LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow	1.9	10237	MED13L
chr11	18282432	18284527	TNBC-ClaudinLow	1.9	-4328	SAA1
chr1	247037993	247039468	Normal,TNBC-ClaudinLow	1.9	55996	AHCTF1
chr8	94130375	94133285	LuminaB,LuminaA	1.89	47249	C8orf87
chr8	340766	341614	TNBC-Basal,TNBC-ClaudinLow	1.89	-8016	FAM87A
chr7	81475185	81476752	TNBC-ClaudinLow	1.89	-76516	HGF
chr6	76526903	76530658	LuminaB	1.89	69872	MYO6
chr6	159299493	159300565	LuminaB	1.89	-9589	C6orf99
chr5	137173157	137175055	Normal,TNBC-Basal	1.89	-29438	MYOT
chr3	182354214	182356333	Normal	1.89	-151123	FLJ46066
chr16	69356952	69360606	LuminaB,LuminaA	1.89	5719	PDF
chr16	21177927	21179321	Normal,TNBC-ClaudinLow	1.89	-7862	DNAH3
chr12	56962904	56965524	Normal,TNBC-Basal,TNBC-ClaudinLow	1.89	48606	RBMS2
chr12	1720634	1721971	Normal	1.89	-4919	WNT5B
chr12	125189664	125191179	LuminaB	1.89	-138411	NCOR2
chr10	3918682	3920280	Normal	1.89	-92008	KLF6
chr10	126898062	126898863	TNBC-Basal	1.89	-48838	CTBP2
chr1	52389302	52392171	Normal,TNBC-ClaudinLow	1.89	-46127	NRD1
chr9	80461628	80464442	Normal,TNBC-Basal,TNBC-ClaudinLow	1.88	183330	GNAQ
chr8	142326155	142330405	LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow	1.88	-22367	LINC01300
chr8	101675332	101676867	LuminaB,LuminaA,TNBC-Basal	1.88	-14206	SNX31
chr7	111626854	111628432	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	1.88	179083	DOCK4-AS1
chr5	135406261	135407501	Normal	1.88	9405	VTRNA2-1
chr4	19730498	19732744	TNBC-ClaudinLow	1.88	-523565	SLIT2
chr4	142727716	142728812	Normal,TNBC-ClaudinLow	1.88	170516	IL15
chr3	87881119	87882995	LuminaB,LuminaA	1.88	-149668	HTR1F
chr21	29803046	29803810	Normal	1.88	-108211	LINC00161
chr20	3892227	3893340	Normal,TNBC-Basal,HER2	1.88	-5357	MIR103A2
chr2	216499540	216501666	Normal	1.88	182174	LOC102724849
chr2	192529092	192532347	TNBC-ClaudinLow	1.88	-12078	NABP1
chr2	192249478	192253652	Normal,TNBC-ClaudinLow	1.88	141312	MYO1B
chr2	142327492	142328471	LuminaB,LuminaA	1.88	561289	LRP1B
chr2	131050814	131052040	LuminaB,LuminaA	1.88	48529	CCDC115
chr19	14590183	14591627	TNBC-Basal	1.88	-4731	PTGER1
chr16	89717902	89718751	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	1.88	-5825	SPATA33
chr15	57896201	57897286	TNBC-Basal	1.88	12642	GCOM1
chr15	39683140	39684639	Normal,TNBC-Basal,TNBC-ClaudinLow	1.88	141005	C15orf54
chr14	50967600	50969450	Normal,TNBC-ClaudinLow	1.88	30851	MAP4K5
chr13	42787215	42790341	Normal,TNBC-Basal	1.88	-57510	AKAP11
chr12	133396320	133397518	LuminaB	1.88	8369	GOLGA3
chr1	90363503	90365378	TNBC-Basal	1.88	76961	LRRC8D
chr1	157967294	157969122	Normal,TNBC-Basal,TNBC-ClaudinLow	1.88	5146	KIRREL
chr1	11206753	11208325	Normal	1.88	3585	MTOR-AS1
chr9	91896957	91897910	TNBC-ClaudinLow	1.87	-28679	CKS2
chr9	81976775	81977928	TNBC-Basal	1.87	-209336	TLE4
chr7	78101174	78102511	TNBC-ClaudinLow	1.87	-107799	MIR548AU
chr6	14820420	14822761	TNBC-ClaudinLow	1.87	-424615	JARID2
chr6	145868716	145870006	Normal	1.87	-186643	LOC100507557
chr5	74754760	74756837	LuminaB	1.87	51656	COL4A3BP
chr3	47445680	47447994	Normal,TNBC-Basal	1.87	24347	PTPN23
chr19	30180979	30182523	LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow,HER2	1.87	24212	C19orf12
chr15	78341181	78343793	Normal	1.87	27507	TBC1D2B
chr12	51140846	51142567	LuminaB,LuminaA,HER2	1.87	-16082	ATF1
chr11	69973255	69975781	LuminaB,LuminaA,TNBC-Basal,HER2	1.87	43003	ANO1
chr11	106567361	106568298	Normal,TNBC-ClaudinLow	1.87	321342	GUCY1A2
chr1	84836581	84837758	Normal	1.87	26407	UOX
chr1	196263907	196267620	Normal	1.87	285848	MIR4735
chr1	161073595	161075090	Normal	1.87	6162	KLHDC9
chr7	45121154	45123208	LuminaB,LuminaA,TNBC-Basal,HER2	1.86	6312	NACAD
chr6	52363008	52365075	Normal,TNBC-ClaudinLow	1.86	77821	TRAM2
chr5	33043089	33044839	Normal,TNBC-Basal	1.86	96416	LOC340113
chr5	177962073	177964829	TNBC-Basal	1.86	54105	COL23A1
chr4	86270033	86271503	LuminaB,LuminaA	1.86	-125515	ARHGAP24
chr4	41025627	41027361	Normal	1.86	-167285	APBB2
chr3	119853153	119857240	Normal,TNBC-Basal,TNBC-ClaudinLow	1.86	-41932	GSK3B
chr22	40381165	40382082	Normal,TNBC-Basal	1.86	-9329	FAM83F
chr22	26859587	26861328	Normal	1.86	15190	HPS4
chr21	36964671	36966141	Normal	1.86	-12344	LOC100506403
chr21	36011580	36016038	Normal,TNBC-ClaudinLow	1.86	-26368	RCAN1
chr19	51582066	51583403	TNBC-Basal	1.86	4768	KLK14
chr17	2362108	2363424	Normal,TNBC-ClaudinLow	1.86	-44036	LOC284009
chr10	65005631	65007260	Normal	1.86	22538	JMJD1C
chr9	118394684	118396292	Normal,TNBC-ClaudinLow	1.85	111030	LOC101928775
chr8	99717509	99721368	TNBC-Basal	1.85	118461	STK3
chr8	98541901	98543272	LuminaB,LuminaA	1.85	-83861	LOC101927066
chr8	27234421	27237073	Normal	1.85	52667	PTK2B
chr8	17371704	17372983	LuminaA	1.85	17747	SLC7A2
chr6	44823045	44824711	Normal,TNBC-Basal	1.85	341629	MIR586
chr5	130965453	130967312	Normal	1.85	4547	RAPGEF6
chr4	85720620	85721997	Normal	1.85	166236	WDFY3
chr20	39152369	39155634	Normal	1.85	163879	MAFB
chr20	33946878	33948941	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	1.85	52036	UQCC1
chr2	179091359	179092639	Normal,TNBC-ClaudinLow	1.85	32792	OSBPL6
chr2	165000960	165002640	Normal,TNBC-ClaudinLow	1.85	-409287	FIGN
chr16	54067162	54069978	TNBC-Basal,HER2	1.85	-4734	FTO-IT1
chr14	60650437	60651592	Normal	1.85	-18803	DHRS7
chr14	36866878	36868276	LuminaB	1.85	-77695	MBIP
chr13	45458152	45459481	Normal	1.85	-75050	LINC00330
chr13	30875904	30877568	Normal,TNBC-Basal	1.85	4455	KATNAL1
chr12	91380885	91381895	Normal	1.85	17413	EPYC
chr11	134275409	134276849	TNBC-ClaudinLow	1.85	5683	B3GAT1
chr11	12912495	12913559	Normal	1.85	98068	LINC00958
chr1	38014933	38016088	Normal,TNBC-ClaudinLow	1.85	4435	SNIP1
chr1	172686698	172689877	Normal	1.85	60103	FASLG
chrX	21831128	21833340	LuminaB,HER2	1.84	-25421	MBTPS2
chr9	38671761	38673559	TNBC-ClaudinLow	1.84	51576	FAM201A
chr9	138303948	138305725	LuminaB,LuminaA	1.84	59259	PPP1R26-AS1
chr8	121415596	121417578	Normal,HER2	1.84	-41050	MTBP
chr5	72508810	72510541	TNBC-ClaudinLow	1.84	40653	TMEM174
chr5	141845077	141846913	Normal,TNBC-ClaudinLow	1.84	141138	LOC101926941
chr5	130657828	130660330	Normal	1.84	59378	CDC42SE2
chr4	80969744	80971823	Normal	1.84	23694	ANTXR2
chr4	36169143	36171342	Normal	1.84	-75495	LOC439933
chr4	17708825	17710189	LuminaB,LuminaA	1.84	73628	FAM184B
chr4	142308718	142309797	TNBC-Basal	1.84	-55486	LOC100507639
chr20	40111195	40112056	Normal,LuminaA,TNBC-Basal,TNBC-ClaudinLow	1.84	-116127	EMILIN3
chr2	9880376	9881858	TNBC-ClaudinLow	1.84	-102453	TAF1B
chr2	56748109	56749015	LuminaA	1.84	-335657	LOC100129434
chr19	15405231	15406438	TNBC-Basal	1.84	-14572	BRD4
chr18	46339669	46341787	Normal,TNBC-ClaudinLow	1.84	128449	SMAD7
chr17	35417891	35418724	LuminaB,LuminaA	1.84	27266	MIR2909
chr17	11996208	11998231	LuminaB	1.84	12004	MIR744
chr16	21374553	21376166	Normal,HER2	1.84	14676	SNX29P1
chr15	91032206	91033856	Normal,LuminaA	1.84	-40086	CRTC3
chr15	71131139	71132699	Normal	1.84	-13658	LRRC49
chr12	74125591	74126452	Normal	1.84	560390	LOC100507377
chr12	66252528	66253744	Normal	1.84	22222	LOC100129940
chr12	133306116	133307209	LuminaB	1.84	19270	PGAM5
chr12	116925864	116928376	LuminaB,LuminaA	1.84	-44106	LINC00173
chr11	122657409	122658184	Normal	1.84	-51458	CRTAM
chrX	54771532	54775541	LuminaB,LuminaA	1.83	51137	ITIH6
chrX	107314255	107315257	Normal	1.83	20118	PSMD10
chr8	8381243	8383029	Normal	1.83	-142792	SGK223
chr8	17979146	17980760	Normal,TNBC-ClaudinLow	1.83	-37446	ASAH1
chr8	100723229	100725329	LuminaB,LuminaA,TNBC-Basal	1.83	-175190	MIR875
chr7	42260919	42262696	Normal	1.83	14811	GLI3
chr7	30975734	30978643	TNBC-Basal	1.83	16070	AQP1
chr6	25388562	25390249	Normal,TNBC-Basal	1.83	109750	LRRC16A
chr5	92854359	92857018	Normal	1.83	51361	NR2F1-AS1
chr4	84787076	84788670	Normal,TNBC-ClaudinLow	1.83	330404	AGPAT9
chr4	181253920	181254847	Normal	1.83	825919	LINC00290
chr4	138594704	138595448	Normal	1.83	-141424	PCDH18
chr3	38446133	38446753	TNBC-ClaudinLow	1.83	-49346	ACVR2B
chr3	195611509	195614221	Normal,TNBC-Basal	1.83	-3599	MIR6829
chr3	159583019	159585482	Normal,TNBC-Basal	1.83	26601	SCHIP1
chr3	102133783	102135293	Normal,TNBC-ClaudinLow	1.83	-19320	ZPLD1
chr22	41223248	41224408	TNBC-Basal	1.83	-8425	SLC25A17
chr21	22373771	22375262	LuminaB,LuminaA	1.83	3884	NCAM2
chr2	62105153	62107518	Normal	1.83	9471	CCT4
chr17	41483950	41485047	Normal,LuminaA,TNBC-Basal,TNBC-ClaudinLow	1.83	8146	ARL4D
chr14	77973773	77975816	Normal,TNBC-ClaudinLow	1.83	-9584	ISM2
chr10	74446708	74448952	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	1.83	-4058	MCU
chr1	25682023	25683295	TNBC-Basal	1.83	17871	TMEM50A
chr9	80470965	80472406	Normal	1.82	174680	GNAQ
chr7	2338420	2341773	TNBC-Basal,TNBC-ClaudinLow	1.82	14014	SNX8
chr6	57147266	57148627	Normal	1.82	-19802	LOC100506188
chr6	27869513	27872218	LuminaB,TNBC-Basal,TNBC-ClaudinLow	1.82	9309	OR2B2
chr6	129914732	129915849	Normal	1.82	116080	ARHGAP18
chr5	61134971	61137188	Normal	1.82	-104554	LOC100506526
chr5	175829202	175829981	Normal,TNBC-Basal	1.82	13808	HIGD2A
chr5	136797071	136800796	Normal	1.82	36085	SPOCK1
chr3	138085419	138086871	TNBC-Basal	1.82	18176	MRAS
chr20	34213907	34215377	Normal	1.82	10834	SPAG4
chr2	72788488	72789642	Normal,TNBC-ClaudinLow	1.82	264112	EXOC6B
chr2	56451053	56452115	Normal	1.82	-38679	LOC100129434
chr2	37933750	37934600	Normal,TNBC-ClaudinLow	1.82	-34497	CDC42EP3
chr16	57148921	57151124	TNBC-Basal	1.82	23568	CPNE2
chr16	22670278	22671355	LuminaB,LuminaA,HER2	1.82	-58786	MIR548D2
chr13	50134194	50135921	LuminaB,LuminaA	1.82	24662	RCBTB1
chr11	9158179	9162190	LuminaB,HER2	1.82	44275	KRT8P41
chr1	56435710	56436888	HER2	1.82	608958	PPAP2B
chr1	20706484	20708064	Normal,TNBC-ClaudinLow	1.82	48013	LINC01141
chr1	117011958	117017226	LuminaB,LuminaA,HER2	1.82	6856	LOC101929023
chr8	103648211	103650283	LuminaB,LuminaA	1.81	16945	KLF10
chr7	130982193	130984073	Normal,TNBC-ClaudinLow	1.81	29405	MKLN1-AS
chr4	129300755	129302082	Normal	1.81	-47752	LOC100507487
chr3	188102256	188103662	Normal,HER2	1.81	159767	LPP
chr3	175536765	175538162	TNBC-Basal,HER2	1.81	-43342	NAALADL2-AS1
chr3	122502857	122506295	Normal,TNBC-Basal	1.81	8090	HSPBAP1
chr2	69066114	69066932	TNBC-ClaudinLow	1.81	32126	BMP10
chr2	38349784	38351631	Normal	1.81	-7539	CYP1B1-AS1
chr18	20616553	20619792	LuminaB,LuminaA,TNBC-Basal,HER2	1.81	-96355	CABLES1
chr17	74942165	74943641	LuminaB,LuminaA	1.81	74175	MGAT5B
chr17	45965666	45967957	LuminaB,LuminaA,TNBC-Basal,HER2	1.81	-6704	SP2
chr15	93500692	93501766	Normal	1.81	53601	MIR3175
chr14	21139111	21140224	LuminaB,LuminaA	1.81	-12668	ANG
chr13	45370797	45372339	HER2	1.81	12198	LINC00330
chr13	110963333	110965867	Normal,TNBC-Basal,TNBC-ClaudinLow	1.81	4970	COL4A2
chr12	75564299	75565571	LuminaB,LuminaA	1.81	38593	KCNC2
chr11	11952694	11954562	Normal,TNBC-ClaudinLow	1.81	76558	DKK3
chr10	134376436	134377528	LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow,HER2	1.81	25630	INPP5A
chr9	88565095	88565890	Normal	1.8	9436	NAA35
chr8	67652801	67655657	LuminaB,LuminaA	1.8	26011	PTTG3P
chr7	127685040	127686550	HER2	1.8	-14793	LRRC4
chr6	32212126	32213513	TNBC-ClaudinLow	1.8	-20975	NOTCH4
chr5	6739884	6742175	TNBC-Basal	1.8	-5071	PAPD7
chr5	21347184	21348031	LuminaB	1.8	-111981	GUSBP1
chr5	169319255	169321967	Normal,TNBC-Basal	1.8	87133	FAM196B
chr4	89025260	89032486	HER2	1.8	51138	ABCG2
chr4	106060890	106062377	Normal	1.8	-5398	TET2
chr3	190244012	190247123	Normal,TNBC-Basal	1.8	13728	IL1RAP
chr3	188199668	188201119	Normal	1.8	86061	LPP-AS1
chr22	41952559	41954569	Normal,TNBC-Basal	1.8	-3449	CSDC2
chr20	61397429	61398626	LuminaB,LuminaA	1.8	10181	LINC00659
chr2	28877395	28878785	TNBC-Basal	1.8	-96523	PPP1CB
chr2	109520813	109523066	TNBC-Basal	1.8	83889	EDAR
chr2	101323417	101324684	Normal,TNBC-ClaudinLow	1.8	-112562	NPAS2
chr19	12588469	12589896	LuminaB,TNBC-Basal	1.8	6450	ZNF709
chr14	88651746	88657233	HER2	1.8	82766	KCNK10
chr13	52075584	52077426	Normal,TNBC-ClaudinLow	1.8	49025	INTS6-AS1
chr13	37760803	37762620	Normal	1.8	-81910	CSNK1A1L
chr12	27712644	27714179	Normal,TNBC-Basal,TNBC-ClaudinLow	1.8	36367	PPFIBP1
chr11	108556141	108557275	Normal,TNBC-Basal,TNBC-ClaudinLow	1.8	20957	DDX10
chr1	181358866	181361309	LuminaA,HER2	1.8	-92598	CACNA1E
chr1	116269638	116271514	Normal,TNBC-ClaudinLow	1.8	40850	CASQ2
chr8	29916321	29917742	Normal,TNBC-ClaudinLow	1.79	23693	SARAF
chr6	26553187	26556582	Normal,TNBC-Basal,TNBC-ClaudinLow	1.79	16313	HMGN4
chr5	98241919	98243683	Normal	1.79	19437	CHD1
chr5	42106460	42110336	LuminaB,LuminaA,HER2	1.79	67049	LOC101926960
chr4	44167354	44168135	Normal	1.79	283080	KCTD8
chr4	114676699	114678030	Normal,TNBC-ClaudinLow	1.79	5719	CAMK2D
chr3	194357062	194359241	TNBC-Basal	1.79	-4001	TMEM44
chr22	43419318	43422182	TNBC-Basal,HER2	1.79	-9566	PACSIN2
chr2	19178610	19180459	LuminaB	1.79	-368655	MIR4757
chr18	12871637	12873129	TNBC-Basal	1.79	11951	PTPN2
chr14	96541320	96543308	LuminaB,LuminaA	1.79	36654	C14orf132
chr13	42038455	42040211	Normal,TNBC-Basal,TNBC-ClaudinLow	1.79	7792	RGCC
chr11	128340731	128342097	Normal,TNBC-Basal,TNBC-ClaudinLow	1.79	50791	ETS1
chr1	52506960	52508331	Normal	1.79	-8173	KTI12
chr1	200451650	200454601	Normal,TNBC-ClaudinLow	1.79	-73939	ZNF281
chrX	117483546	117486230	Normal,TNBC-ClaudinLow	1.78	4853	WDR44
chr9	90464633	90466862	Normal,TNBC-Basal,TNBC-ClaudinLow	1.78	6088	CTSLP8
chr9	116420405	116421376	TNBC-ClaudinLow	1.78	64457	RGS3
chr8	142098516	142100818	LuminaB,TNBC-Basal	1.78	-39052	DENND3
chr7	27649923	27651740	Normal,TNBC-Basal	1.78	-4761	TSL
chr5	67328585	67329771	Normal	1.78	-156525	LOC102467655
chr5	39211432	39212785	TNBC-Basal	1.78	7572	FYB
chr5	32848570	32850160	TNBC-Basal	1.78	-98183	LOC340113
chr5	143154492	143155764	Normal,TNBC-ClaudinLow	1.78	-36597	HMHB1
chr4	78721691	78722857	Normal	1.78	18270	CNOT6L
chr3	189272221	189273235	LuminaB,TNBC-Basal	1.78	-76487	TP63
chr22	27926570	27928849	Normal,TNBC-ClaudinLow	1.78	269777	MN1
chr2	63194984	63196308	Normal	1.78	79200	LOC100132215
chr18	2197349	2198425	TNBC-Basal	1.78	373602	METTL4
chr15	96767980	96769934	Normal	1.78	-100199	NR2F2
chr13	27974678	27976115	Normal,TNBC-Basal	1.78	-23284	GTF3A
chr12	98882415	98886112	LuminaB,HER2	1.78	13370	LOC643770
chr12	39819916	39821755	Normal	1.78	16357	KIF21A
chr1	191544182	191545993	LuminaB,LuminaA	1.78	-582504	RGS18
chr1	180741759	180743130	Normal,TNBC-ClaudinLow	1.78	-139868	KIAA1614
chrX	152028565	152029983	LuminaB,LuminaA	1.77	29764	NSDHL
chr7	17693686	17695521	Normal,TNBC-Basal	1.77	-96070	LOC101927630
chr7	135461990	135463038	LuminaB,LuminaA	1.77	-28920	FAM180A
chr7	105816832	105818167	TNBC-ClaudinLow	1.77	-64406	SYPL1
chr6	71820947	71821652	TNBC-Basal,TNBC-ClaudinLow	1.77	-154511	B3GAT2
chr6	21405233	21406180	LuminaB	1.77	106417	LINC00581
chr4	139103170	139104301	Normal	1.77	-51896	LINC00616
chr4	113683568	113684512	TNBC-ClaudinLow	1.77	-55198	ANK2
chr4	106752126	106752942	LuminaB,LuminaA	1.77	-4205	LOC101929529
chr3	32321312	32322479	HER2	1.77	41725	CMTM8
chr3	156200980	156202485	Normal,TNBC-Basal,TNBC-ClaudinLow	1.77	-37038	KCNAB1-AS1
chr18	19382423	19384844	Normal,TNBC-Basal	1.77	22113	MIR133A1
chr16	27486254	27488167	Normal,TNBC-ClaudinLow	1.77	-22496	IL21R-AS1
chr15	60447254	60448429	Normal,TNBC-Basal,TNBC-ClaudinLow	1.77	151421	FOXB1
chr13	41350548	41352318	Normal,LuminaA,TNBC-ClaudinLow	1.77	-6086	MRPS31
chr12	123130855	123132066	Normal,TNBC-ClaudinLow	1.77	56444	HCAR2
chr10	78050505	78052009	Normal	1.77	508739	C10orf11
chr1	54231559	54233589	Normal,TNBC-ClaudinLow	1.77	-32697	GLIS1
chr1	46182871	46183820	Normal,TNBC-ClaudinLow	1.77	29499	TMEM69
chr1	186411250	186412555	Normal,LuminaA,TNBC-ClaudinLow	1.77	5954	PDC
chr7	99843386	99846970	LuminaB,LuminaA,HER2	1.76	24677	GATS
chr7	76197240	76198428	Normal,TNBC-ClaudinLow	1.76	19177	LOC100133091
chr6	124519277	124521119	Normal,TNBC-ClaudinLow	1.76	-83952	NKAIN2
chr4	55951885	55955271	Normal	1.76	38184	KDR
chr4	184173277	184174850	HER2	1.76	67864	CLDN22
chr2	216541538	216543233	Normal	1.76	165874	LINC00607
chr17	73426202	73427424	LuminaA,TNBC-Basal,TNBC-ClaudinLow	1.76	24664	MIR3678
chr16	31012514	31015388	LuminaB,LuminaA	1.76	7878	STX1B
chr15	100671212	100672697	Normal	1.76	210229	ADAMTS17
chr14	79484469	79485738	Normal	1.76	-260578	NRXN3
chr12	122606931	122609582	TNBC-ClaudinLow	1.76	-44009	LRRC43
chr11	27882904	27884643	Normal,TNBC-ClaudinLow	1.76	-140168	BDNF
chr1	23726922	23732500	Normal,TNBC-ClaudinLow	1.76	21550	TCEA3
chr1	193323613	193325440	TNBC-ClaudinLow	1.76	50652	LINC01031
chr9	81225702	81228320	Normal,TNBC-Basal,TNBC-ClaudinLow	1.75	315021	PSAT1
chr5	132179702	132181007	LuminaB,LuminaA	1.75	-13764	SHROOM1
chr4	83434127	83435818	LuminaB,LuminaA	1.75	48154	TMEM150C
chr4	2861672	2866026	Normal	1.75	17973	ADD1
chr4	146652859	146659005	Normal,LuminaB,TNBC-Basal,TNBC-ClaudinLow	1.75	54577	C4orf51
chr4	143418833	143423255	LuminaB,LuminaA	1.75	346560	INPP4B
chr4	126175336	126176219	Normal,TNBC-ClaudinLow	1.75	-61789	FAT4
chr3	194431742	194433722	Normal,TNBC-Basal	1.75	3583	LOC100507391
chr3	159511795	159513296	TNBC-Basal	1.75	-26144	IQCJ-SCHIP1-AS1
chr2	99092054	99093675	LuminaB	1.75	31544	INPP4A
chr19	19556647	19559713	LuminaA	1.75	-17968	GATAD2A
chr17	78824095	78825788	Normal	1.75	-45509	LOC101928855
chr12	75173516	75175868	Normal,TNBC-ClaudinLow	1.75	243142	ATXN7L3B
chr11	72150121	72152202	Normal,TNBC-ClaudinLow	1.75	-5437	CLPB
chr8	55183839	55184851	Normal,LuminaA,TNBC-Basal,TNBC-ClaudinLow	1.74	136565	MRPL15
chr7	43401773	43403229	HER2	1.74	159640	LOC100506895
chr7	133422111	133424826	HER2	1.74	86173	LOC101928861
chr6	137597915	137599706	TNBC-Basal,TNBC-ClaudinLow	1.74	-58243	IFNGR1
chr5	33456557	33457817	TNBC-Basal	1.74	16306	TARS
chr5	169027781	169030114	Normal	1.74	18310	SPDL1
chr5	14793248	14794704	Normal,LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow	1.74	32145	MIR4637
chr5	146738008	146739638	Normal	1.74	94437	DPYSL3
chr5	118713306	118715305	Normal	1.74	22791	TNFAIP8
chr22	46867096	46870767	LuminaB	1.74	64136	CELSR1
chr22	22068020	22069495	TNBC-ClaudinLow	1.74	21314	YPEL1
chr17	29835043	29836999	LuminaB,LuminaA,TNBC-Basal	1.74	-25879	MIR4724
chr13	44854343	44855623	Normal	1.74	-84647	MIR8079
chr12	119520041	119521123	LuminaB	1.74	-96012	HSPB8
chr1	94661966	94663651	Normal,TNBC-Basal	1.74	40499	ARHGAP29
chr1	78783813	78784804	Normal,TNBC-ClaudinLow	1.74	89026	MGC27382
chrX	12281170	12282277	Normal,TNBC-ClaudinLow	1.73	125139	FRMPD4
chr7	22637064	22638355	Normal,TNBC-Basal,TNBC-ClaudinLow	1.73	34754	LOC100506178
chr4	83565274	83566504	Normal	1.73	-23299	LINC00575
chr3	49425012	49426612	Normal	1.73	23714	RHOA
chr3	38276236	38277745	Normal,HER2	1.73	-30307	SLC22A13
chr3	125229991	125231506	Normal,TNBC-Basal	1.73	8310	SNX4
chr22	19246798	19248121	Normal,TNBC-ClaudinLow	1.73	31780	CLTCL1
chr20	37151827	37152988	Normal	1.73	50959	RALGAPB
chr2	61134171	61136870	LuminaB,LuminaA	1.73	26891	REL
chr2	214994442	214995944	Normal,TNBC-Basal	1.73	-281267	VWC2L
chr2	180838665	180840669	Normal	1.73	32113	CWC22
chr18	11893561	11894279	Normal,TNBC-Basal,TNBC-ClaudinLow	1.73	14876	MPPE1
chr14	67810428	67812189	Normal	1.73	15412	ATP6V1D
chr12	80048182	80049878	LuminaB	1.73	35760	PAWR
chr10	101636139	101637077	TNBC-ClaudinLow	1.73	-50357	DNMBP-AS1
chr1	232854773	232856047	Normal	1.73	23051	LOC101927683
chr8	97853807	97856240	Normal	1.72	197569	CPQ
chr8	134080655	134081937	Normal,TNBC-Basal,TNBC-ClaudinLow	1.72	-8693	SLA
chr7	148895944	148897616	Normal,TNBC-ClaudinLow	1.72	4204	ZNF282
chr6	44054138	44056187	LuminaB,LuminaA,TNBC-Basal,HER2	1.72	-12773	LOC101929705
chr6	106795293	106796158	LuminaB,LuminaA	1.72	-22030	ATG5
chr4	141710208	141712296	Normal,TNBC-Basal,TNBC-ClaudinLow	1.72	-33781	TBC1D9
chr2	54123818	54124727	Normal	1.72	-37102	GPR75-ASB3
chr19	38699171	38701364	Normal	1.72	14623	DPF1
chr16	84779111	84781968	LuminaB,LuminaA	1.72	46985	USP10
chr16	80047013	80049810	Normal,LuminaB	1.72	219266	LOC101928248
chr14	67836419	67838566	Normal,TNBC-ClaudinLow	1.72	10459	EIF2S1
chr10	556208	558395	LuminaB,LuminaA,TNBC-ClaudinLow	1.72	130417	MIR5699
chr10	54217796	54219965	Normal	1.72	-3848	LINC01468
chr10	42984364	42985143	TNBC-Basal,TNBC-ClaudinLow	1.72	13815	LINC00839
chr1	44536912	44538401	TNBC-ClaudinLow	1.72	-40492	SLC6A9
chrX	96492972	96493823	Normal,TNBC-Basal,TNBC-ClaudinLow	1.71	326137	DIAPH2-AS1
chr8	23375641	23376857	Normal,TNBC-ClaudinLow	1.71	-10113	SLC25A37
chr4	103489359	103491467	Normal	1.71	67928	NFKB1
chr2	232238330	232239267	Normal,TNBC-Basal	1.71	11380	MIR4777
chr2	220907794	220909612	Normal,TNBC-ClaudinLow	1.71	-137417	MIR4268
chr19	45837968	45839819	HER2	1.71	-5104	KLC3
chr19	45083524	45085012	TNBC-Basal,HER2	1.71	-24118	CEACAM22P
chr19	18851698	18854130	LuminaA,TNBC-Basal	1.71	49200	COMP
chr13	50255682	50256986	Normal,LuminaB	1.71	9289	EBPL
chr13	102047919	102049534	Normal,TNBC-Basal,TNBC-ClaudinLow	1.71	20087	NALCN
chr10	90494788	90496397	Normal,TNBC-Basal,TNBC-ClaudinLow	1.71	11292	LIPK
chr10	123913367	123915913	TNBC-Basal	1.71	-8300	TACC2
chr1	45060260	45061062	Normal,TNBC-ClaudinLow	1.71	49497	MIR5584
chrX	48372048	48373428	Normal	1.7	4567	PORCN
chr8	17769690	17770686	TNBC-ClaudinLow	1.7	-10177	PCM1
chr5	66722259	66724129	Normal	1.7	-230577	CD180
chr4	8507728	8509075	TNBC-Basal	1.7	65870	TRMT44
chr4	74729620	74731207	Normal,LuminaA,TNBC-Basal,TNBC-ClaudinLow,HER2	1.7	-4695	CXCL1
chr22	31948649	31949601	Normal,LuminaA	1.7	57001	SFI1
chr21	45053798	45055182	TNBC-ClaudinLow	1.7	-24620	MIR6070
chr12	69908657	69909464	Normal,LuminaB,LuminaA	1.7	44932	FRS2
chr12	22805660	22806455	Normal,TNBC-Basal	1.7	27982	ETNK1
chr12	107811949	107813852	LuminaB,HER2	1.7	100704	BTBD11
chr10	62135568	62136413	LuminaB	1.7	13644	ANK3
chr10	43639691	43641692	TNBC-Basal,HER2	1.7	6799	CSGALNACT2
chr1	25080189	25081147	Normal,TNBC-Basal,TNBC-ClaudinLow	1.7	8909	CLIC4
chr9	90410581	90414768	LuminaB,HER2	1.69	24845	CTSL3P
chr9	133285870	133286883	TNBC-Basal	1.69	-33717	ASS1
chr6	22025610	22026871	Normal,TNBC-Basal,TNBC-ClaudinLow	1.69	121182	CASC14
chr3	47389334	47390272	Normal	1.69	-32687	PTPN23
chr19	14477132	14478012	LuminaB,LuminaA,TNBC-Basal	1.69	-14383	CD97
chr10	126020535	126021683	Normal,TNBC-Basal	1.69	86436	OAT
chr1	64627140	64628206	Normal,TNBC-Basal,TNBC-ClaudinLow	1.69	-41816	UBE2U
chr1	25129160	25130288	Normal,TNBC-Basal	1.69	57965	CLIC4
chr1	117777620	117778542	LuminaB,LuminaA,TNBC-Basal,HER2	1.69	-24499	VTCN1
chr8	49604324	49605297	Normal,TNBC-ClaudinLow	1.68	43060	EFCAB1
chr7	92257870	92259670	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	1.68	-39062	FAM133B
chr6	27576012	27577433	Normal,TNBC-Basal	1.68	-85091	LINC01012
chr4	53717751	53721110	LuminaB,HER2	1.68	-9064	RASL11B
chr3	120371782	120374812	LuminaB,LuminaA	1.68	28121	HGD
chr20	48369046	48371733	TNBC-Basal,HER2	1.68	-39968	B4GALT5
chr20	48277153	48279866	TNBC-Basal,HER2	1.68	51912	B4GALT5
chr2	208023123	208024491	Normal	1.68	6933	KLF7
chr12	12248322	12249138	LuminaB	1.68	-16155	MIR1244-1
chr1	63086566	63088959	Normal,TNBC-ClaudinLow	1.68	24605	ANGPTL3
chr5	34810106	34811380	TNBC-Basal	1.67	-28525	TTC23L
chr3	73101713	73102615	Normal,TNBC-ClaudinLow	1.67	-8645	EBLN2
chr3	195849108	195850488	LuminaB,LuminaA,TNBC-Basal,HER2	1.67	-19708	LINC00885
chr3	134160605	134161472	Normal,TNBC-Basal	1.67	4370	MIR4788
chr3	127729850	127731007	LuminaA,TNBC-Basal	1.67	-40783	SEC61A1
chr2	69808683	69811167	Normal,TNBC-Basal,TNBC-ClaudinLow	1.67	61052	AAK1
chr2	197874364	197875494	TNBC-Basal,TNBC-ClaudinLow	1.67	-83475	PGAP1
chr2	173872854	173874309	LuminaA	1.67	-66983	ZAK
chr2	11659761	11660553	LuminaA,TNBC-Basal	1.67	-14084	GREB1
chr15	39803180	39804636	Normal,TNBC-ClaudinLow	1.67	-69371	THBS1
chr11	16178838	16179635	Normal	1.67	-188069	MIR6073
chrX	41271180	41272469	HER2	1.66	-34888	NYX
chr8	17187306	17188392	LuminaA,TNBC-ClaudinLow	1.66	83191	MTMR7
chr4	153815191	153816382	Normal,TNBC-Basal	1.66	-48348	FHDC1
chr3	105052634	105054091	Normal,TNBC-ClaudinLow	1.66	-32194	ALCAM
chr2	175830826	175831717	Normal,LuminaA,TNBC-ClaudinLow	1.66	38710	CHN1
chr2	121889075	121890938	TNBC-Basal	1.66	152772	TFCP2L1
chr19	15348968	15352680	TNBC-Basal	1.66	-6966	EPHX3
chr17	55463927	55466099	LuminaB,LuminaA	1.66	130640	MSI2
chr14	105243358	105245083	LuminaB,LuminaA,TNBC-Basal,HER2	1.66	15718	AKT1
chr11	57930548	57933398	TNBC-Basal,HER2	1.66	-25932	OR9Q2
chr6	117829403	117831334	Normal,TNBC-Basal	1.65	26549	DCBLD1
chr3	104322777	104324339	Normal,LuminaA	1.65	-377453	MIR548A3
chr20	622744	623741	LuminaB,TNBC-Basal	1.65	10772	SRXN1
chr20	16526915	16529660	LuminaB,LuminaA	1.65	25792	KIF16B
chr2	26798880	26800982	LuminaB,LuminaA,TNBC-Basal	1.65	14451	C2orf70
chr19	50962967	50964672	TNBC-ClaudinLow	1.65	-15914	EMC10
chr15	69446192	69448427	Normal,TNBC-Basal,TNBC-ClaudinLow	1.65	-5663	GLCE
chr11	33307166	33309971	LuminaB,LuminaA	1.65	28692	HIPK3
chr10	102241209	102243178	LuminaB,LuminaA	1.65	19382	WNT8B
chr1	60168664	60170444	Normal,TNBC-ClaudinLow	1.65	29414	MIR4711
chr1	168572586	168573891	Normal	1.65	27528	XCL1
chr1	165810556	165813470	Normal,TNBC-Basal,TNBC-ClaudinLow	1.65	15282	UCK2
chr5	14928661	14930237	Normal,TNBC-Basal	1.64	-57562	ANKH
chr5	124262882	124264353	Normal	1.64	-108906	LOC101927421
chr4	95618473	95620127	LuminaA	1.64	59384	BMPR1B-AS1
chr4	86129452	86132597	TNBC-Basal,HER2	1.64	243054	WDFY3-AS2
chr3	186702928	186704439	LuminaB,TNBC-Basal,HER2	1.64	-35981	ST6GAL1
chr15	34497720	34499289	Normal	1.64	3793	KATNBL1
chr13	89878990	89880238	Normal,TNBC-ClaudinLow	1.64	337053	LINC00353
chr11	61202189	61203505	Normal,TNBC-ClaudinLow	1.64	5251	SDHAF2
chr11	11770188	11771420	Normal,TNBC-ClaudinLow	1.64	33965	MIR8070
chr1	46688540	46690065	Normal,LuminaB,LuminaA,TNBC-Basal,HER2	1.64	-3325	POMGNT1
chr1	44533604	44534878	TNBC-ClaudinLow	1.64	-37077	SLC6A9
chr1	22403884	22404746	Normal	1.64	25196	CDC42
chr3	89756914	89757876	LuminaB,LuminaA	1.63	600722	EPHA3
chr21	45556022	45558898	Normal,LuminaA,TNBC-ClaudinLow,HER2	1.63	3967	C21orf33
chr21	30958201	30959211	Normal,TNBC-ClaudinLow	1.63	-9653	GRIK1-AS2
chr20	23391591	23393452	Normal	1.63	9635	NAPB
chr2	28874741	28876285	Normal,TNBC-Basal	1.63	-99100	PPP1CB
chr2	190097353	190099224	Normal	1.63	-53683	COL5A2
chr19	3106663	3108913	LuminaB	1.63	13381	GNA11
chr17	4272964	4275147	HER2	1.63	-4086	UBE2G1
chr15	43755148	43756312	Normal,TNBC-ClaudinLow	1.63	29624	TP53BP1
chr10	112391692	112393483	Normal	1.63	-11567	RBM20
chr1	59232786	59235433	Normal,TNBC-ClaudinLow	1.63	15676	JUN
chr1	193906686	193908703	LuminaB,LuminaA	1.63	633820	LINC01031
chr1	178136745	178139327	Normal,TNBC-ClaudinLow	1.63	-74908	RASAL2-AS1
chrX	133703947	133705634	LuminaB,LuminaA	1.62	20737	LINC00629
chr8	30384495	30385567	Normal,TNBC-Basal	1.62	-111085	SMIM18
chr6	128794827	128796531	Normal,TNBC-Basal	1.62	46140	PTPRK
chr5	168096594	168098760	LuminaB,TNBC-Basal	1.62	-91063	PANK3
chr4	4285625	4288528	Normal,TNBC-ClaudinLow	1.62	4672	LYAR
chr22	36696700	36701502	TNBC-Basal,HER2	1.62	-16148	MIR6819
chr22	36278440	36279939	Normal,TNBC-Basal	1.62	-42559	RBFOX2
chr17	79509816	79511034	LuminaA	1.62	9004	C17orf70
chr16	53324621	53326557	Normal,TNBC-Basal	1.62	79452	LOC643802
chr16	48525238	48526256	Normal,TNBC-Basal	1.62	-106518	SIAH1
chr15	59157554	59158646	TNBC-Basal,TNBC-ClaudinLow	1.62	67752	SLTM
chr11	32417681	32419834	TNBC-ClaudinLow	1.62	33606	WT1
chr10	95210219	95211918	Normal,LuminaB,LuminaA	1.62	31006	MYOF
chr10	102637606	102638691	LuminaB	1.62	-34177	FAM178A
chr7	107629014	107630513	Normal,TNBC-ClaudinLow	1.61	14041	LAMB1
chr6	13444989	13447372	Normal,TNBC-Basal	1.61	26115	GFOD1
chr4	54915674	54917865	Normal,TNBC-ClaudinLow	1.61	14046	CHIC2
chr21	9698826	9699798	LuminaA,TNBC-Basal,TNBC-ClaudinLow	1.61	-126519	MIR3648-1
chr2	241171727	241172929	Normal,LuminaB,LuminaA,TNBC-ClaudinLow	1.61	-92255	OTOS
chr17	55466442	55475702	LuminaB,LuminaA	1.61	129886	LOC101927557
chr17	31399473	31400695	TNBC-ClaudinLow	1.61	81203	SPACA3
chr16	14598701	14600505	Normal	1.61	124525	PARN
chr10	22222364	22223666	Normal,LuminaB,TNBC-ClaudinLow	1.61	69635	DNAJC1
chr6	16746906	16748253	Normal,TNBC-ClaudinLow,HER2	1.6	14142	ATXN1
chr5	32598737	32600625	Normal,TNBC-Basal,TNBC-ClaudinLow	1.6	14077	SUB1
chr5	118110705	118111732	LuminaB,LuminaA	1.6	179336	LOC102467225
chr3	10024327	10025632	Normal,LuminaA,TNBC-ClaudinLow	1.6	3543	EMC3
chr14	95015016	95019694	LuminaA,TNBC-Basal	1.6	-10401	SERPINA4
chr1	234912168	234915839	TNBC-Basal	1.6	54215	LINC01132
chr4	770969	771770	Normal,LuminaB,LuminaA,TNBC-ClaudinLow	1.59	4267	LOC100129917
chr4	111196788	111197860	Normal,TNBC-ClaudinLow	1.59	-77504	ELOVL6
chr3	52054570	52056136	TNBC-Basal	1.59	-25395	RPL29
chr22	39810585	39811912	TNBC-Basal	1.59	15490	TAB1
chr20	40196749	40200191	LuminaB,LuminaA	1.59	48663	CHD6
chr1	86119225	86123426	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	1.59	52791	ZNHIT6
chr1	46394308	46395914	Normal,TNBC-Basal,TNBC-ClaudinLow	1.59	125827	MAST2
chr9	129820490	129821948	TNBC-Basal,TNBC-ClaudinLow	1.58	63825	ANGPTL2
chr7	92320648	92322435	Normal,TNBC-Basal,TNBC-ClaudinLow,HER2	1.58	-101833	FAM133B
chr4	141616183	141617716	LuminaA	1.58	-52715	TNRC18P1
chr2	173885840	173887346	LuminaA	1.58	-53971	ZAK
chr2	110312751	110314090	LuminaB	1.58	58363	SEPT10
chr10	101208312	101209684	LuminaB	1.58	-18468	GOT1
chr1	164590742	164593304	TNBC-Basal,HER2	1.58	63427	PBX1
chr9	20511714	20512827	LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow,HER2	1.57	-9930	MIR4474
chr8	66566403	66568109	LuminaB	1.57	10369	MTFR1
chr7	50851714	50852550	LuminaB,LuminaA	1.57	9027	GRB10
chr20	45388963	45391344	TNBC-Basal,HER2	1.57	51875	SLC2A10
chr2	9413332	9417622	Normal,TNBC-Basal,TNBC-ClaudinLow	1.57	68584	ASAP2
chr12	45720930	45722421	Normal,HER2	1.57	35210	ANO6
chr11	129580264	129581117	LuminaA,TNBC-Basal	1.57	-93526	LINC01395
chr1	19721474	19723113	Normal,LuminaA,TNBC-Basal	1.57	83554	PQLC2
chr4	57989812	57990892	Normal,TNBC-ClaudinLow	1.56	-13801	IGFBP7
chr20	55454875	55456609	LuminaB,LuminaA,TNBC-Basal,HER2	1.56	251385	TFAP2C
chr2	189637109	189639114	Normal,TNBC-ClaudinLow	1.56	16720	DIRC1
chr17	48216867	48218728	LuminaB,LuminaA	1.56	10081	PPP1R9B
chr16	23738796	23739746	Normal,LuminaA	1.56	-14450	ERN2
chr12	68069230	68070944	Normal	1.56	27576	DYRK2
chr11	75400361	75401679	TNBC-Basal,TNBC-ClaudinLow	1.56	-21541	MAP6
chr11	65533166	65535447	TNBC-ClaudinLow	1.56	13756	AP5B1
chr1	55279998	55282402	TNBC-Basal	1.56	9465	C1orf177
chr1	205584798	205586771	Normal	1.56	16216	ELK4
chr6	38098955	38099980	Normal,TNBC-ClaudinLow	1.55	312161	ZFAND3
chr5	54131355	54133867	TNBC-ClaudinLow	1.55	-92525	LOC102467080
chr4	151840682	151842225	Normal,TNBC-Basal,TNBC-ClaudinLow	1.55	94966	LRBA
chr3	155637714	155638587	Normal,TNBC-Basal	1.55	49826	GMPS
chr20	48274925	48276600	TNBC-Basal,HER2	1.55	54659	B4GALT5
chr7	219373	220797	LuminaB,LuminaA,TNBC-Basal,TNBC-ClaudinLow,HER2	1.54	27117	FAM20C
chr22	24557704	24558613	LuminaB,LuminaA,TNBC-Basal,HER2	1.54	-19285	SUSD2
chr2	121537466	121538358	Normal,LuminaA,TNBC-Basal	1.54	-16954	GLI2
chr2	121282059	121284191	LuminaA,HER2	1.54	-59200	LINC01101
chr10	70851514	70853542	Normal,TNBC-ClaudinLow	1.54	4701	SRGN
chr10	126359385	126360300	Normal,LuminaB,LuminaA,TNBC-Basal	1.53	-32754	FAM53B-AS1
chr1	44784178	44784979	Normal,TNBC-ClaudinLow	1.53	36373	ERI3
chr9	129890763	129892485	TNBC-Basal,TNBC-ClaudinLow	1.52	-6580	ANGPTL2
chr3	142789378	142790554	Normal,TNBC-Basal	1.52	-48651	CHST2
chr15	65379631	65381214	TNBC-Basal	1.52	11269	KBTBD13
chr11	65068726	65070447	TNBC-Basal,TNBC-ClaudinLow	1.52	-12702	CDC42EP2
chr3	25534146	25535336	Normal,TNBC-ClaudinLow	1.51	34941	RARB
chr2	196205752	196208029	LuminaB,LuminaA	1.51	-314641	SLC39A10
chr17	41167225	41168362	TNBC-Basal,TNBC-ClaudinLow	1.51	6666	VAT1
chr12	133054014	133054958	LuminaB,LuminaA	1.51	-12670	FBRSL1
chr1	80883147	80883930	Normal,TNBC-Basal	1.51	-117901	LOC101927412
chr20	42697632	42698428	TNBC-Basal,TNBC-ClaudinLow	1.5	118188	JPH2