Table 3 ChIP-seq on transcription factors and genome assemblies used to compare TrawlerWeb, RSAT peak-motifs and MEME-ChIP
From: TrawlerWeb: an online de novo motif discovery tool for next-generation sequencing datasets
Transcription factor | ChIP-seq GEO accession number | Reference for ChIP-seq | ChIP-seq dataset size (kbp) | Reference for known binding site | Species | Genome |
|---|---|---|---|---|---|---|
Zic3.2 | GSM1017643 | Winata et al., 2013 [49] | 282 | JASPAR PB0207.1 | D. rerio | danRer7 |
TOC1 | GSM878068 | Huang et al., 2012 [47] | 343 | Huang et al., 2012 | A. thaliana | TAIR9 |
MEF2A | GSM1377538 | Houles et al., 2015 [46] | 338 | JASPAR MA0052.3 | M. musculus | mm9 |
Su(H) | GSE66225 | Skalska et al., 2015 [48] | 475 | JASPAR MA0085.1 | D. melano-gaster | dm3 |
Sox15.1 | GSM1536045 | Sulahian et al., 2015 [40] | 1783 | JASPAR PB0065.1 | H. sapiens | hg19 |