Li 2014, Chromatin maps of WT and mutant seedlings.


Chromatin maps of wild type A. thaliana seedlings (Col-0) and a double mutant in the AtISWI genes CHROMATIN REMODELING 11 (CHR11) and CHR17, two chromatin remodelers.



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

DNase FAIRE data:

Filename Description Feature GEO-ID
1 GSM1216734.sga Seedling|chr11-1 chr17-1 MNase GSM1216734
2 GSM1216733.sga Seedlings|Col-0 MNase GSM1216733

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. 1.5.2).


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Last update: 1 Oct 2018