Duttke 2015, 5'-GRO-seq and GRO-seq in HelaS3 cells.


5'-GRO-seq and GRO-seq in Hela cells



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

RNA-seq data:

Filename Description Feature GEO-ID
1 GSM1558746.sga HelaS3|GRO-seq GROcap GSM1558746
2 GSM1558745.sga HelaS3|5'-GRO-seq GROcap GSM1558745

Technical Notes

FASTQ files were extracted from SRA files using fastq-dump (SRA toolkit v2.5.0) and mapped to the 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).


Last update: 16 Mar 2017