Del Rosario 2015, H3K27ac profiles in multiple lymphoblastoid cell lines.

ChIP-seq data:

	Filename	Description	Feature	GEO-ID
1	GSM1420889.sga	GM18486\|H3K27ac\|PairedEnd	H3K27ac	GSM1420889
2	GSM1420890.sga	GM18498\|H3K27ac\|PairedEnd	H3K27ac	GSM1420890
3	GSM1420869.sga	GM18499\|H3K27ac\|PairedEnd	H3K27ac	GSM1420869
4	GSM1420841.sga	GM18502\|H3K27ac\|PairedEnd	H3K27ac	GSM1420841
5	GSM1420842.sga	GM18504\|H3K27ac\|PairedEnd	H3K27ac	GSM1420842
6	GSM1420843.sga	GM18507\|H3K27ac\|PairedEnd	H3K27ac	GSM1420843
7	GSM1420844.sga	GM18508\|H3K27ac\|PairedEnd	H3K27ac	GSM1420844
8	GSM1420891.sga	GM18510\|H3K27ac\|PairedEnd	H3K27ac	GSM1420891
9	GSM1420892.sga	GM18511\|H3K27ac\|PairedEnd	H3K27ac	GSM1420892
10	GSM1420871.sga	GM18516\|H3K27ac\|SingleEnd	H3K27ac	GSM1420871
11	GSM1420872.sga	GM18517\|H3K27ac\|SingleEnd	H3K27ac	GSM1420872
12	GSM1420870.sga	GM18519\|H3K27ac\|PairedEnd	H3K27ac	GSM1420870
13	GSM1420893.sga	GM18520\|H3K27ac\|PairedEnd	H3K27ac	GSM1420893
14	GSM1420873.sga	GM18522\|H3K27ac\|SingleEnd	H3K27ac	GSM1420873
15	GSM1420874.sga	GM18523\|H3K27ac\|SingleEnd	H3K27ac	GSM1420874
16	GSM1420875.sga	GM18852\|H3K27ac\|SingleEnd	H3K27ac	GSM1420875
17	GSM1420876.sga	GM18853\|H3K27ac\|SingleEnd	H3K27ac	GSM1420876
18	GSM1420877.sga	GM18855\|H3K27ac\|PairedEnd	H3K27ac	GSM1420877
19	GSM1420845.sga	GM18856\|H3K27ac\|PairedEnd	H3K27ac	GSM1420845
20	GSM1420846.sga	GM18861\|H3K27ac\|PairedEnd	H3K27ac	GSM1420846
21	GSM1420847.sga	GM18862\|H3K27ac\|PairedEnd	H3K27ac	GSM1420847
22	GSM1420848.sga	GM18870\|H3K27ac\|PairedEnd	H3K27ac	GSM1420848
23	GSM1420894.sga	GM18909\|H3K27ac\|PairedEnd	H3K27ac	GSM1420894
24	GSM1420878.sga	GM18912\|H3K27ac\|PairedEnd	H3K27ac	GSM1420878
25	GSM1420879.sga	GM18913\|H3K27ac\|PairedEnd	H3K27ac	GSM1420879
26	GSM1420895.sga	GM18916\|H3K27ac\|PairedEnd	H3K27ac	GSM1420895
27	GSM1420849.sga	GM19093\|H3K27ac\|PairedEnd	H3K27ac	GSM1420849
28	GSM1420865.sga	GM19098\|H3K27ac\|PairedEnd	H3K27ac	GSM1420865
29	GSM1420866.sga	GM19099\|H3K27ac\|PairedEnd	H3K27ac	GSM1420866
30	GSM1420883.sga	GM19101\|H3K27ac\|PairedEnd	H3K27ac	GSM1420883
31	GSM1420851.sga	GM19102\|H3K27ac\|PairedEnd	H3K27ac	GSM1420851
32	GSM1420896.sga	GM19114\|H3K27ac\|PairedEnd\|rep1	H3K27ac	GSM1420896
33	GSM1420898.sga	GM19114\|H3K27ac\|PairedEnd\|rep2	H3K27ac	GSM1420898
34	GSM1420855.sga	GM19116\|H3K27ac\|PairedEnd	H3K27ac	GSM1420855
35	GSM1420888.sga	GM19119\|H3K27ac\|PairedEnd	H3K27ac	GSM1420888
36	GSM1420860.sga	GM19127\|H3K27ac\|PairedEnd	H3K27ac	GSM1420860
37	GSM1420859.sga	GM19128\|H3K27ac\|PairedEnd	H3K27ac	GSM1420859
38	GSM1420858.sga	GM19130\|H3K27ac\|PairedEnd	H3K27ac	GSM1420858
39	GSM1420857.sga	GM19131\|H3K27ac\|PairedEnd	H3K27ac	GSM1420857
40	GSM1420884.sga	GM19137\|H3K27ac\|PairedEnd	H3K27ac	GSM1420884
41	GSM1420885.sga	GM19138\|H3K27ac\|PairedEnd	H3K27ac	GSM1420885
42	GSM1420856.sga	GM19140\|H3K27ac\|PairedEnd	H3K27ac	GSM1420856
43	GSM1420864.sga	GM19143\|H3K27ac\|PairedEnd	H3K27ac	GSM1420864
44	GSM1420861.sga	GM19144\|H3K27ac\|PairedEnd	H3K27ac	GSM1420861
45	GSM1420897.sga	GM19147\|H3K27ac\|PairedEnd\|rep1	H3K27ac	GSM1420897
46	GSM1420899.sga	GM19147\|H3K27ac\|PairedEnd\|rep2	H3K27ac	GSM1420899
47	GSM1420863.sga	GM19152\|H3K27ac\|PairedEnd	H3K27ac	GSM1420863
48	GSM1420862.sga	GM19153\|H3K27ac\|PairedEnd	H3K27ac	GSM1420862
49	GSM1420880.sga	GM19159\|H3K27ac\|PairedEnd	H3K27ac	GSM1420880
50	GSM1420881.sga	GM19160\|H3K27ac\|PairedEnd	H3K27ac	GSM1420881
51	GSM1420886.sga	GM19171\|H3K27ac\|PairedEnd	H3K27ac	GSM1420886
52	GSM1420852.sga	GM19172\|H3K27ac\|PairedEnd	H3K27ac	GSM1420852
53	GSM1420867.sga	GM19193\|H3K27ac\|PairedEnd	H3K27ac	GSM1420867
54	GSM1420853.sga	GM19200\|H3K27ac\|PairedEnd	H3K27ac	GSM1420853
55	GSM1420887.sga	GM19201\|H3K27ac\|PairedEnd	H3K27ac	GSM1420887
56	GSM1420854.sga	GM19209\|H3K27ac\|PairedEnd	H3K27ac	GSM1420854
57	GSM1420850.sga	GM19210\|H3K27ac\|PairedEnd	H3K27ac	GSM1420850
58	GSM1420882.sga	GM19222\|H3K27ac\|PairedEnd	H3K27ac	GSM1420882
59	GSM1420868.sga	GM19239\|H3K27ac\|PairedEnd	H3K27ac	GSM1420868
60	GSM1420900.sga	GM19147\|Input\|PairedEnded100bp	Input	GSM1420900
61	GSM1420902.sga	GM19147\|Input\|PairedEnded50bp	Input	GSM1420902
62	GSM1420901.sga	GM19147\|Input\|SingleEnded100bp	Input	GSM1420901

FASTQ files were extracted from SRA files using fastq-dump (SRA toolkit v2.5.0) and mapped to the hg19 genome using Bowtie v0.12.8. SAM files were then converted into bam using samtools v0.1.14 and to bed using bamToBed v2.12.0 (bedtools). SGA conversion was carried out using bed2sga.pl (ChIP-Seq v. 1.5.2).
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.

Del Rosario 2015, H3K27ac profiles in multiple lymphoblastoid cell lines.

Description

Source

Samples

Technical Notes

References