Ercan 2011, Nucleosome occupancy profiling by high throughput sequencing.


Nucleosome occupancy profiles of different developmental stages in C. elegans: embryos, germlineless adults, germ line containing adults, and XO hermaphrodites at L3 larval stage. A control sample is also present.



From C. elegans (May 2008 WS190/ce6).

DNase FAIRE data:

Filename Description Feature GEO-ID
1 GSM514735.sga Mixed stage embryos MNase GSM514735
2 GSM514736.sga Young germline-less adults MNase GSM514736
3 GSM590213.sga Young germline containing adults MNase GSM590213
4 GSM590214.sga L3 stage XO hermaphrodites MNase GSM590214
5 GSM590215.sga Control sample MNase GSM590215

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 (ChIP-Seq v. 1.5.3).


Last update: 1 Oct 2018