motifs: Transite Motif Database

Description Usage Format References

Description

The Transite motif database contains sequence motifs and associated k-mers of more than 100 different RNA-binding proteins, obtained from publicly available motif databases.

Usage

1

Format

A list of lists with the following components:

id motif id
rbps gene symbols of RNA-binding proteins associated with motif
matrix data frame of sequence motif (position weight matrix)
hexamers all motif-associated hexamers
heptamers all motif-associated heptamers
length length of motif in nucleotides
iupac IUPAC string of sequence motif
type type of motif, e.g., RNAcompete
species usually human
src source of motif, e.g., RNA Zoo

References

http://cisbp-rna.ccbr.utoronto.ca/

http://rbpdb.ccbr.utoronto.ca/


transite documentation built on Nov. 8, 2020, 5:27 p.m.