Liu15, Leaves chromatin maps trated with Coronatine.

Description

Nucleosome maps of rosette leaves treated and untreated with coronatine (samples named COR and Control respectively). An additional controm (naked DNA) is also present.

Source

Samples

From A. thaliana (Feb 2011 TAIR10/araTha1).

:

Filename Description Feature GEO-ID
1 GSM1570248.sga Leaves|Nucleosome-gDNA|control|rep1; MNase GSM1570248
2 GSM1570249.sga Leaves|Nucleosome-gDNA|control|rep2; MNase GSM1570249
3 GSM1570250.sga Leaves|Nucleosome-gDNA|COR|rep1; MNase GSM1570250
4 GSM1570251.sga Leaves|Nucleosome-gDNA|COR|rep2; MNase GSM1570251
5 GSM1570252.sga Leaves|Naked-gDNA|control|rep1; MNase GSM1570252

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).

References

Last update: 12 Dec 2016