Del Rosario 2015, H3K27ac profiles in multiple lymphoblastoid cell lines

Description

ChIP-seq profiling of H3K27ac on 57 human lymphoblastoid cell lines coming from a single population. The data are paired-ended but contain a single-ended control sample as well as paired-end control samples. The data were generated using the Illumina HiSeq 2000 technology.
This dataset was used by the authors to perform de novo SNP calling in regulatory regions and to annotate some of them as histone acetylation QTLs, which were found to be predictive of autoimmune disorders.

Source

Original files were downloaded from GEO site : http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE58852.
Input file format : SRA

Samples

From Human Feb. 2009 (GRCh37/hg19) Assembly

Filename Description Feature GEO-ID
1 GSM1420889.sga GM18486|H3K27ac H3K27ac GSM1420889
2 GSM1420890.sga GM18498|H3K27ac H3K27ac GSM1420890
3 GSM1420869.sga GM18499|H3K27ac H3K27ac GSM1420869
4 GSM1420841.sga GM18502|H3K27ac H3K27ac GSM1420841
5 GSM1420842.sga GM18504|H3K27ac H3K27ac GSM1420842
6 GSM1420843.sga GM18507|H3K27ac H3K27ac GSM1420843
7 GSM1420844.sga GM18508|H3K27ac H3K27ac GSM1420844
8 GSM1420891.sga GM18510|H3K27ac H3K27ac GSM1420891
9 GSM1420892.sga GM18511|H3K27ac H3K27ac GSM1420892
10 GSM1420871.sga GM18516|H3K27ac H3K27ac GSM1420871
11 GSM1420872.sga GM18517|H3K27ac H3K27ac GSM1420872
12 GSM1420870.sga GM18519|H3K27ac H3K27ac GSM1420870
13 GSM1420893.sga GM18520|H3K27ac H3K27ac GSM1420893
14 GSM1420893.sga GM18520|H3K27ac H3K27ac GSM1420893
15 GSM1420873.sga GM18522|H3K27ac H3K27ac GSM1420873
16 GSM1420874.sga GM18523|H3K27ac H3K27ac GSM1420874
17 GSM1420875.sga GM18852|H3K27ac H3K27ac GSM1420875
18 GSM1420876.sga GM18853|H3K27ac H3K27ac GSM1420876
19 GSM1420877.sga GM18855|H3K27ac H3K27ac GSM1420877
20 GSM1420845.sga GM18856|H3K27ac H3K27ac GSM1420845
21 GSM1420846.sga GM18861|H3K27ac H3K27ac GSM1420846
22 GSM1420847.sga GM18862|H3K27ac H3K27ac GSM1420847
23 GSM1420848.sga GM18870|H3K27ac H3K27ac GSM1420848
24 GSM1420894.sga GM18909|H3K27ac H3K27ac GSM1420894
25 GSM1420878.sga GM18912|H3K27ac H3K27ac GSM1420878
26 GSM1420879.sga GM18913|H3K27ac H3K27ac GSM1420879
27 GSM1420895.sga GM18916|H3K27ac H3K27ac GSM1420895
28 GSM1420849.sga GM19093|H3K27ac H3K27ac GSM1420849
29 GSM1420865.sga GM19098|H3K27ac H3K27ac GSM1420865
30 GSM1420866.sga GM19099|H3K27ac H3K27ac GSM1420866
31 GSM1420883.sga GM19101|H3K27ac H3K27ac GSM1420883
32 GSM1420851.sga GM19102|H3K27ac H3K27ac GSM1420851
33 GSM1420896.sga GM19114|H3K27ac|rep1 H3K27ac GSM1420896
34 GSM1420898.sga GM19114|H3K27ac|rep2 H3K27ac GSM1420898
35 GSM1420855.sga GM19116|H3K27ac H3K27ac GSM1420855
36 GSM1420888.sga GM19119|H3K27ac H3K27ac GSM1420888
37 GSM1420860.sga GM19127|H3K27ac H3K27ac GSM1420860
38 GSM1420859.sga GM19128|H3K27ac H3K27ac GSM1420859
39 GSM1420858.sga GM19130|H3K27ac H3K27ac GSM1420858
40 GSM1420857.sga GM19131|H3K27ac H3K27ac GSM1420857
41 GSM1420884.sga GM19137|H3K27ac H3K27ac GSM1420884
42 GSM1420885.sga GM19138|H3K27ac H3K27ac GSM1420885
43 GSM1420856.sga GM19140|H3K27ac H3K27ac GSM1420856
44 GSM1420864.sga GM19143|H3K27ac H3K27ac GSM1420864
45 GSM1420861.sga GM19144|H3K27ac H3K27ac GSM1420861
46 GSM1420897.sga GM19147|H3K27ac|rep1 H3K27ac GSM1420897
47 GSM1420899.sga GM19147|H3K27ac|rep2 H3K27ac GSM1420899
48 GSM1420863.sga GM19152|H3K27ac H3K27ac GSM1420863
49 GSM1420862.sga GM19153|H3K27ac H3K27ac GSM1420862
50 GSM1420880.sga GM19159|H3K27ac H3K27ac GSM1420880
51 GSM1420881.sga GM19160|H3K27ac H3K27ac GSM1420881
52 GSM1420886.sga GM19171|H3K27ac H3K27ac GSM1420886
53 GSM1420852.sga GM19172|H3K27ac H3K27ac GSM1420852
54 GSM1420867.sga GM19193|H3K27ac H3K27ac GSM1420867
55 GSM1420853.sga GM19200|H3K27ac H3K27ac GSM1420853
56 GSM1420887.sga GM19201|H3K27ac H3K27ac GSM1420887
57 GSM1420854.sga GM19209|H3K27ac H3K27ac GSM1420854
58 GSM1420850.sga GM19210|H3K27ac H3K27ac GSM1420850
59 GSM1420882.sga GM19222|H3K27ac H3K27ac GSM1420882
60 GSM1420868.sga GM19239|H3K27ac H3K27ac GSM1420868
61 GSM1420902.sga GM19147|InputPairedEnded50bp H3K27ac GSM1420902
62 GSM1420900.sga GM19147|InputPairedEnded100bp H3K27ac GSM1420900
63 GSM1420901.sga GM19147|InputSingleEnded100bp H3K27ac GSM1420901

Technical Notes

The sga files were generated from the original data available on GEO. For paired-ended data, the sga files provide the unoriented middle position of the fragments and for single-ended reads the starting or ending position of the reads. The data were mapped on human genome assembly 2009 (NCBI37/hg19).

Reference

  1. Del Rosario RC, Poschmann J, Rouam SL, Png E, Khor CC, Hibberd ML, Prabhakar S. Sensitive detection of chromatin-altering polymorphisms reveals autoimmune disease mechanisms. Nature 2015, 12:458-464. PMID: 25799442

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