Ross-Inness 2012, breast cancer, ER and FOXA1.


ChIP-Seq for ER and FOXA1 in breast cancer tumors and cell lines. Samples include eight primary tumors from patients with good prognosis (ER+ PR+ HER2-), seven primary tumors from patients with poor outcome (ER+ PR- HER2- or ER+ PR+ HER2+), three ER+ distant metastases, two ER- tumors, and five breast cancer cell lines grown under two different different conditions. Input used as control.



From H. sapiens (March 2006 NCBI36/hg18).

ChIP-seq data:

Filename Description Feature GEO-ID
1 GSM798384_BT82590_ER_Responder.sga tumor BT82590(good) ER ER GSM798384
2 GSM798407_BT82590_none_Responder.sga tumor BT82590(good) Input Input GSM798407
3 GSM798383_BT82597_ER_Responder.sga tumor BT82597(good) ER ER GSM798383
4 GSM798406_BT82597_none_Responder.sga tumor BT82597(good) Input Input GSM798406
5 GSM798385_CC106585_T3_ER_Responder.sga tumor CC106585(good) ER ER GSM798385
6 GSM798386_CX627219_T4_ER_Responder.sga tumor CX627219(good) ER ER GSM798386
7 GSM798408_CX627219_T4_none_Responder.sga tumor CX627219(good) Input Input GSM798408
8 GSM798391_NT2289_ER_Responder.sga tumor NT2289(good) ER ER GSM798391
9 GSM798412_NT2289_none_Responder.sga tumor NT2289(good) Input Input GSM798412
10 GSM798389_NT2433_ER_Responder.sga tumor NT2433(good) ER ER GSM798389
11 GSM798410_NT2433_none_Responder.sga tumor NT2433(good) Input Input GSM798410
12 GSM798387_NT2304_ER_Responder.sga tumor NT2304(good) ER rep1 ER GSM798387
13 GSM798388_NT2304_ER_Responder.sga tumor NT2304(good) ER rep2 ER GSM798388
14 GSM798409_NT2304_none_Responder.sga tumor NT2304(good) Input Input GSM798409
15 GSM798390_NT2360_ER_Responder.sga tumor NT2360(good) ER ER GSM798390
16 GSM798411_NT2360_none_Responder.sga tumor NT2360(good) Input Input GSM798411
17 GSM798400_BT81583_ER_Non-responder.sga tumor BT81583(poor) ER ER GSM798400
18 GSM798417_BT81583_none_Non-responder.sga tumor BT81583(poor) ER Input GSM798417
19 GSM798398_BT81585_ER_Non-responder.sga tumor BT81585(poor) ER rep1 ER GSM798398
20 GSM798399_BT81585_ER_Non-responder.sga tumor BT81585(poor) ER rep2 ER GSM798399
21 GSM798416_BT81585_none_Non-responder.sga tumor BT81585(poor) Input Input GSM798416
22 GSM798392_CC316812_T1_ER_Non-responder.sga tumor CC316812(poor) ER ER GSM798392
23 GSM798393_CC135745_T2_ER_Non-responder.sga tumor CC135745(poor) ER ER GSM798393
24 GSM798394_NT2138_ER_Non-responder.sga tumor NT2138(poor) ER ER GSM798394
25 GSM798413_NT2138_none_Non-responder.sga tumor NT2138(poor) Input Input GSM798413
26 GSM798395_NT2171_ER_Non-responder.sga tumor NT2171(poor) ER ER GSM798395
27 GSM798414_NT2171_none_Non-responder.sga tumor NT2171(poor) Input Input GSM798414
28 GSM798396_NT2350_ER_Non-responder.sga tumor NT2350(poor) ER rep1 ER GSM798396
29 GSM798397_NT2350_ER_Non-responder.sga tumor NT2350(poor) ER rep2 ER GSM798397
30 GSM798415_NT2350_none_Non-responder.sga tumor NT2350(poor) Input Input GSM798415
31 GSM798405_NT2079_ER_ER-.sga tumor NT2079(ERneg) ER ER GSM798405
32 GSM798422_NT2079_none_ER-.sga tumor NT2079(ERneg) Input Input GSM798422
33 GSM798404_NT2229_ER_ER-.sga tumor NT2229(ERneg) ER ER GSM798404
34 GSM798421_NT2229_none_ER-.sga tumor NT2229(ERneg) Input Input GSM798421
35 GSM798401_Met_T1_ER_Metastasis.sga metastasis T1 ER ER GSM798401
36 GSM798418_Met_T1_none_Metastasis.sga metastasis T1 Input Input GSM798418
37 GSM798402_Met_T3_ER_Metastasis.sga metastasis T3 ER ER GSM798402
38 GSM798419_Met_T3_none_Metastasis.sga metastasis T3 Input Input GSM798419
39 GSM798403_Met_T4_ER_Metastasis.sga metastasis T4 ER ER GSM798403
40 GSM798420_Met_T4_none_Metastasis.sga metastasis T4 Input Input GSM798420
41 GSM798423_MCF7_ER_Tam-Responsive.sga cell-line MCF7 ER rep1 ER GSM798423
42 GSM798424_MCF7_ER_Tam-Responsive.sga cell-line MCF7 ER rep2 ER GSM798424
43 GSM798425_MCF7_ER_Tam-Responsive.sga cell-line MCF7 ER rep3 ER GSM798425
44 GSM798434_MCF7_ER_Cocktail_90.sga cell-line MCF7 ER Cocktail rep1 ER GSM798434
45 GSM798435_MCF7_ER_Cocktail_90.sga cell-line MCF7 ER Cocktail rep2 ER GSM798435
46 GSM798437_MCF7_FOXA1_Veh_90.sga cell-line MCF7 FOXA1 Vehicle rep1 FOXA1 GSM798437
47 GSM798439_MCF7_FOXA1_Veh_90.sga cell-line MCF7 FOXA1 Vehicle rep2 FOXA1 GSM798439
48 GSM798436_MCF7_FOXA1_Cocktail_90.sga cell-line MCF7 FOXA1 Cocktail rep1 FOXA1 GSM798436
49 GSM798438_MCF7_FOXA1_Cocktail_90.sga cell-line MCF7 FOXA1 Cocktail rep2 FOXA1 GSM798438
50 GSM798440_MCF7_Input_Tam-Responsive.sga cell-line MCF7 Input Input GSM798440
51 GSM798426_ZR75_ER_Tam-Responsive.sga cell-line ZR75 ER rep1 ER GSM798426
52 GSM798427_ZR75_ER_Tam-Responsive.sga cell-line ZR75 ER rep2 ER GSM798427
53 GSM798441_ZR75_Input_Tam-Responsive.sga cell-line ZR75 Input Input GSM798441
54 GSM798428_T47D_ER_Tam-Responsive.sga cell-line T47D ER rep1 ER GSM798428
55 GSM798429_T47D_ER_Tam-Responsive.sga cell-line T47D ER rep2 ER GSM798429
56 GSM798442_T47D_Input_Tam-Responsive.sga cell-line T47D Input Input GSM798442
57 GSM798430_BT474_ER_Tam-Resist.sga cell-line BT474 ER rep1 ER GSM798430
58 GSM798431_BT474_ER_Tam-Resist.sga cell-line BT474 ER rep2 ER GSM798431
59 GSM798443_BT474_Input_Tam-Resist.sga cell-line BT474 Input Input GSM798443
60 GSM798432_TAMR_ER_Tam-Resist.sga cell-line TAM-R ER rep1 ER GSM798432
61 GSM798433_TAMR_ER_Tam-Resist.sga cell-line TAM-R ER rep2 ER GSM798433
62 GSM798444_TAMR_Input_Tam-Resist.sga cell-line TAM-R Input Input GSM798444

Notes on samples nomenclature:

Technical Notes

The sga files were automatically generated from the original BAM files providing the starting and ending postions of mapped sequence tags in the human genome assembly 2006 (NCBI36/hg18).


Last update: 1 Oct 2018