Schmidt 2010, Mapping of HNF4a and CEBPA in liver

Description

ChIP-seq against HNF4 alpha (hepatocyte nuclear factor 4 alpha) and CEBPA (CCAAT/enhancer-binding protein alpha), replicates 1 and 2, in liver cells from human and mouse.

Source

Samples

From Human Mar. 2006 (GRCh36/hg18) Assembly.

ChIP-seq data:

Filename Description Feature GEO-ID
1 do199_HNF4a_liver.sga liver|HNF4a HNF4a GSM548875, GSM548876
2 do204_CEBPA_liver.sga liver|CEBPA|rep1 CEBPA GSM548881, GSM548882
3 do206_CEBPA_liver.sga liver|CEBPA|rep2 CEBPA GSM548885, GSM548886
4 Input_liver.sga liver|Input Input GSM548868, GSM548883, GSM548884
Merged samples:

The following samples were merged:

Technical Notes

FASTQ files were mapped to the hg18 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).

References

Last update: 23 Feb 2016