Induced pluripotent stem cells.

Description

This samples serie was produced as part of the RoadMap Project.

Source

Files downloaded from GEO FTP server: ftp://ftp.ncbi.nlm.nih.gov/pub/geo/DATA/roadmapepigenomics/by_sample/
Input file format: BED

Samples

From H. sapiens (Feb 2009 GRCh37/hg19).

ChIP-seq data:

	Filename	Description	Feature	GEO-ID
1	GSM752979_UCSD.iPS_DF_19.11.H3K4me1.SK473.sga	iPS DF 19\|11\|rep 10	H3K4me1	GSM752979
2	GSM706074_UCSD.iPS_DF_19.11.H3K4me3.SK227.sga	iPS DF 19\|11\|rep 11	H3K4me3	GSM706074
3	GSM752984_UCSD.iPS_DF_19.11.H3K4me3.SK475.sga	iPS DF 19\|11\|rep 12	H3K4me3	GSM752984
4	GSM706079_UCSD.iPS_DF_19.11.H3K9me3.SK232.sga	iPS DF 19\|11\|rep 13	H3K9me3	GSM706079
5	GSM752988_UCSD.iPS_DF_19.11.H3K9me3.SK474.sga	iPS DF 19\|11\|rep 14	H3K9me3	GSM752988
6	GSM706082_UCSD.iPS_DF_19.11.Input.SKiPS19.11-1.sga	iPS DF 19\|11\|rep 15	Input	GSM706082
7	GSM752992_UCSD.iPS_DF_19.11.Input.SK446.sga	iPS DF 19\|11\|rep 16	Input	GSM752992
8	GSM706065_UCSD.iPS_DF_19.11.H3K27ac.SK402.sga	iPS DF 19\|11\|rep 3	H3K27ac	GSM706065
9	GSM752965_UCSD.iPS_DF_19.11.H3K27ac.SK395.sga	iPS DF 19\|11\|rep 4	H3K27ac	GSM752965
10	GSM752966_UCSD.iPS_DF_19.11.H3K27ac.SK434.sga	iPS DF 19\|11\|rep 5	H3K27ac	GSM752966
11	GSM706067_UCSD.iPS_DF_19.11.H3K27me3.SK230.sga	iPS DF 19\|11\|rep 6	H3K27me3	GSM706067
12	GSM752970_UCSD.iPS_DF_19.11.H3K27me3.SK435.sga	iPS DF 19\|11\|rep 7	H3K27me3	GSM752970
13	GSM752974_UCSD.iPS_DF_19.11.H3K36me3.SK472.sga	iPS DF 19\|11\|rep 8	H3K36me3	GSM752974
14	GSM706072_UCSD.iPS_DF_19.11.H3K4me1.SK401.sga	iPS DF 19\|11\|rep 9	H3K4me1	GSM706072
15	GSM752985_UCSD.iPS_DF_6.9.H3K4me3.SK471.sga	iPS DF 6\|9\|rep 10	H3K4me3	GSM752985
16	GSM706080_UCSD.iPS_DF_6.9.H3K9me3.SK274.sga	iPS DF 6\|9\|rep 11	H3K9me3	GSM706080
17	GSM752989_UCSD.iPS_DF_6.9.H3K9me3.SK503.sga	iPS DF 6\|9\|rep 12	H3K9me3	GSM752989
18	GSM706083_UCSD.iPS_DF_6.9.Input.SKiPS6.9-1.sga	iPS DF 6\|9\|rep 13	Input	GSM706083
19	GSM752993_UCSD.iPS_DF_6.9.Input.SK445.sga	iPS DF 6\|9\|rep 14	Input	GSM752993
20	GSM752967_UCSD.iPS_DF_6.9.H3K27ac.SK432.sga	iPS DF 6\|9\|rep 2	H3K27ac	GSM752967
21	GSM706068_UCSD.iPS_DF_6.9.H3K27me3.SK275.sga	iPS DF 6\|9\|rep 3	H3K27me3	GSM706068
22	GSM752971_UCSD.iPS_DF_6.9.H3K27me3.SK433.sga	iPS DF 6\|9\|rep 4	H3K27me3	GSM752971
23	GSM706070_UCSD.iPS_DF_6.9.H3K36me3.SK400.sga	iPS DF 6\|9\|rep 5	H3K36me3	GSM706070
24	GSM752975_UCSD.iPS_DF_6.9.H3K36me3.SK468.sga	iPS DF 6\|9\|rep 6	H3K36me3	GSM752975
25	GSM706073_UCSD.iPS_DF_6.9.H3K4me1.SK397.sga	iPS DF 6\|9\|rep 7	H3K4me1	GSM706073
26	GSM752980_UCSD.iPS_DF_6.9.H3K4me1.SK469.sga	iPS DF 6\|9\|rep 8	H3K4me1	GSM752980
27	GSM706075_UCSD.iPS_DF_6.9.H3K4me3.SK398.sga	iPS DF 6\|9\|rep 9	H3K4me3	GSM706075
28	GSM537694_BI.iPS-11a.H3K4me3.Solexa-11733.sga	iPS-11a\|H3K4me3	H3K4me3	GSM537694
29	GSM537693_BI.iPS-11a.Input.Solexa-11734.sga	iPS-11a\|Input	WCE	GSM537693
30	GSM621433_BI.iPS-15b.H3K27me3.Lib_MC_20100128_05--ChIP_MC_20100125_05_hiPS-15b_H3K27Me3.sga	iPS-15b\|H3K27me3	H3K27me3	GSM621433
31	GSM537690_BI.iPS-15b.H3K36me3.Solexa-20749.sga	iPS-15b\|H3K36me3	H3K36me3	GSM537690
32	GSM772767_BI.iPS-15b.H3K4me1.Lib_MC_20100211_04--ChIP_MC_20100208_04_hiPS-15b_H3K4Me1.sga	iPS-15b\|H3K4me1	H3K4me1	GSM772767
33	GSM537687_BI.iPS-15b.H3K4me3.Solexa-20743.sga	iPS-15b\|H3K4me3	H3K4me3	GSM537687
34	GSM537692_BI.iPS-15b.H3K9ac.Solexa-20747.sga	iPS-15b\|H3K9ac	H3K9ac	GSM537692
35	GSM537691_BI.iPS-15b.H3K9me3.Solexa-20732.sga	iPS-15b\|H3K9me3	H3K9me3	GSM537691
36	GSM537696_BI.iPS-15b.Input.Solexa-15157.sga	iPS-15b\|Input\|rep 1	WCE	GSM537696
37	GSM621444_BI.iPS-15b.Input.Lib_MC_20100128_06--ChIP_MC_20100125_06_hiPS-15b_WCE.sga	iPS-15b\|Input\|rep 2	WCE	GSM621444
38	GSM773033_BI.iPS-18a.H3K27ac.DNA_Lib_349.sga	iPS-18a\|H3K27ac	H3K27ac	GSM773033
39	GSM772935_BI.iPS-18a.H3K27me3.DNA_Lib_348.sga	iPS-18a\|H3K27me3	H3K27me3	GSM772935
40	GSM773027_BI.iPS-18a.H3K36me3.DNA_Lib_347.sga	iPS-18a\|H3K36me3	H3K36me3	GSM773027
41	GSM773028_BI.iPS-18a.H3K4me1.DNA_Lib_346.sga	iPS-18a\|H3K4me1	H3K4me1	GSM773028
42	GSM773029_BI.iPS-18a.H3K4me3.DNA_Lib_345.sga	iPS-18a\|H3K4me3	H3K4me3	GSM773029
43	GSM773030_BI.iPS-18a.H3K9ac.DNA_Lib_344.sga	iPS-18a\|H3K9ac	H3K9ac	GSM773030
44	GSM773023_BI.iPS-18a.H3K9me3.DNA_Lib_343.sga	iPS-18a\|H3K9me3	H3K9me3	GSM773023
45	GSM773024_BI.iPS-18a.Input.DNA_Lib_342.sga	iPS-18a\|Input	WCE	GSM773024
46	GSM621411_BI.iPS-18b.Input.Lib_MC_20090720_02--ChIP_MC_20090715_02_hiPS-18b_WCE.sga	iPS-18b\|Input	WCE	GSM621411
47	GSM537674_BI.iPS-18c.H3K27me3.Solexa-19791.sga	iPS-18c\|H3K27me3	H3K27me3	GSM537674
48	GSM537675_BI.iPS-18c.H3K36me3.Solexa-19808.sga	iPS-18c\|H3K36me3	H3K36me3	GSM537675
49	GSM537671_BI.iPS-18c.H3K4me3.Solexa-15173.sga	iPS-18c\|H3K4me3\|rep 1	H3K4me3	GSM537671
50	GSM537676_BI.iPS-18c.H3K4me3.Solexa-19747.sga	iPS-18c\|H3K4me3\|rep 2	H3K4me3	GSM537676
51	GSM537677_BI.iPS-18c.H3K9ac.Solexa-19756.sga	iPS-18c\|H3K9ac	H3K9ac	GSM537677
52	GSM537678_BI.iPS-18c.H3K9me3.Solexa-19774.sga	iPS-18c\|H3K9me3	H3K9me3	GSM537678
53	GSM621407_BI.iPS-18c.Input.Lib_MC_20100108_07--ChIP_MC_20100105_07_hiPS-18c_WCE.sga	iPS-18c\|Input	WCE	GSM621407
54	GSM772848_BI.iPS-20b.H3K27ac.DNA_Lib_357.sga	iPS-20b\|H3K27ac	H3K27ac	GSM772848
55	GSM537700_BI.iPS-20b.H3K27me3.Solexa-15159.sga	iPS-20b\|H3K27me3\|rep 1	H3K27me3	GSM537700
56	GSM621416_BI.iPS-20b.H3K27me3.Lib_MC_20100119_06--ChIP_MC_20100113_06_hiPS-20b_H3K27Me3.sga	iPS-20b\|H3K27me3\|rep 2	H3K27me3	GSM621416
57	GSM772847_BI.iPS-20b.H3K27me3.DNA_Lib_356.sga	iPS-20b\|H3K27me3\|rep 3	H3K27me3	GSM772847
58	GSM537704_BI.iPS-20b.H3K36me3.Solexa-20763.sga	iPS-20b\|H3K36me3\|rep 1	H3K36me3	GSM537704
59	GSM772846_BI.iPS-20b.H3K36me3.DNA_Lib_355.sga	iPS-20b\|H3K36me3\|rep 2	H3K36me3	GSM772846
60	GSM772804_BI.iPS-20b.H3K4me1.Lib_MC_20100211_03--ChIP_MC_20100208_03_hiPS-20b_H3K4Me1.sga	iPS-20b\|H3K4me1\|rep 1	H3K4me1	GSM772804
61	GSM772845_BI.iPS-20b.H3K4me1.DNA_Lib_354.sga	iPS-20b\|H3K4me1\|rep 2	H3K4me1	GSM772845
62	GSM621423_BI.iPS-20b.H3K4me3.Lib_MC_20100119_05--ChIP_MC_20100113_05_hiPS-20b_H3K4Me3.sga	iPS-20b\|H3K4me3\|rep 1	H3K4me3	GSM621423
63	GSM772844_BI.iPS-20b.H3K4me3.DNA_Lib_353.sga	iPS-20b\|H3K4me3\|rep 2	H3K4me3	GSM772844
64	GSM537689_BI.iPS-20b.H3K9ac.Solexa-20764.sga	iPS-20b\|H3K9ac\|rep 1	H3K9ac	GSM537689
65	GSM772843_BI.iPS-20b.H3K9ac.DNA_Lib_352.sga	iPS-20b\|H3K9ac\|rep 2	H3K9ac	GSM772843
66	GSM537688_BI.iPS-20b.H3K9me3.Solexa-20765.sga	iPS-20b\|H3K9me3\|rep 1	H3K9me3	GSM537688
67	GSM772842_BI.iPS-20b.H3K9me3.DNA_Lib_351.sga	iPS-20b\|H3K9me3\|rep 2	H3K9me3	GSM772842
68	GSM537701_BI.iPS-20b.Input.Solexa-10232.sga	iPS-20b\|Input\|rep 1	WCE	GSM537701
69	GSM621412_BI.iPS-20b.Input.Lib_MC_20100119_07--ChIP_MC_20100113_07_hiPS-20b_WCE.sga	iPS-20b\|Input\|rep 2	WCE	GSM621412
70	GSM772841_BI.iPS-20b.Input.DNA_Lib_350.sga	iPS-20b\|Input\|rep 3	WCE	GSM772841
71	GSM772863_BI.iPS-20b.Input.DNA_Lib_440.sga	iPS-20b\|Input\|rep 4	WCE	GSM772863
72	GSM706069.sga	sga\|	H3K36me3	GSM706069

DNase FAIRE data:

	Filename	Description	Feature	GEO-ID
1	GSM909311_UW.iPS_DF_19.11.Digital_Genomic_Footprinting.DGF.DS15153.sga	iPS DF 19\|11\|rep 1	DNase-HS	GSM909311
2	GSM665801_UW.iPS_DF_19.11.ChromatinAccessibility.DS15153.sga	iPS DF 19\|11\|rep 2	DNase-seq	GSM665801
3	GSM665800_UW.iPS_DF_19.7.ChromatinAccessibility.DS15148.sga	iPS DF 19\|7	DNase-seq	GSM665800
4	GSM665803_UW.iPS_DF_4.7.ChromatinAccessibility.DS15169.sga	iPS DF 4\|7	DNase-seq	GSM665803
5	GSM665802_UW.iPS_DF_6.9.ChromatinAccessibility.DS15164.sga	iPS DF 6\|9\|rep 1	DNase-seq	GSM665802

Technical Notes

BED files were downloaded from the FTP and converted in SGA format using bed2sga (ChIP-seq).

References