Morton 2014, Paired-End Analysis of Transcription Start Sites in Arabidopsis.

Dataset produced using the Paired-End Analysis of Transcription Start Sites (PEAT) protocol, that provides millions of TSS locations from wildtype Col-0 Arabidopsis whole root samples.

• Raw data was downloaded from: http://megraw.cgrb.oregonstate.edu/suppmats/3PEAT/
• Input file format: BAM
• Download date: 09-21-2015

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

Transcription Profiling data:

	Filename	Description	Feature	GEO-ID
1	arabidopsis_TSS.sga	Whole root sample	PEAT	-

Bam files were converted to bed using bamToBed v2.12.0 (bedtools). SGA conversion was carried out using bed2sga.pl (ChIP-Seq v. 1.5.2).

• Morton T, Petricka J, Corcoran DL, Li S, Winter CM, Carda A, Benfey PN, Ohler U, Megraw M
  Paired-end analysis of transcription start sites in Arabidopsis reveals plant-specific promoter signatures. Plant Cell. 2014 Jul;26(7):2746-60. doi: 10.1105/tpc.114.125617. Epub 2014 Jul 17. 25035402