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TF motif analysis

GI George Andrew S Inglis
YZ Ying Zhou
DP Dillon G Patterson
CS Christopher D Scharer
YH Yanfei Han
JB Jeremy M Boss
ZW Zhexing Wen
AE Andrew Escayg
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The MEME Suite v5.0.5 Analysis of Motif Enrichment tool was utilized to determine enrichment of TF binding motifs (HOCOMOCO v11 database) in DARs, compared to shuffled input sequences (Supplementary Material, Table S5) (62,118). TF footprinting in DARs was performed utilizing RGT-HINT software (119). Similarity among HOCOMOCO v11 TF motifs was calculated using STAMP alignment software (http://www.benoslab.pitt.edu/stamp/), phylogenies were visualized with FigTree v1.4.4 (http://tree.bio.ed.ac.uk), and clades of analogous TF motifs were determined using CTree v1.03 (63,120).

Copyright and License information:  ©2020 The Author(s) 2020. Published by Oxford University Press.
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