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Publication for CollecTF
Genome Wide Transcriptional Start Site Mapping and sRNA Identification in the Pathogen Leptospira interrogans
[…] that occur zero or one time per sequence, and are found in at leasts two sequences. We then compared motifs against the Swiss Regulon Escherichia coli motifs database (Pachkov et al., ), and against CollecTF, a database of transcription factor binding sites (TFBS) in the Bacteria domain (Kiliç et al., ). The comparison was performed with Tomtom, a motif comparison tool (Gupta et al., ) from the M […]
G quadruplex prediction in E. coli genome reveals a conserved putative G quadruplex Hairpin Duplex switch
[…] ng sites in the flanking regions in order to find any transcription binding factors associated with the HPGQs. The HPGQ sequences and their flanking regions (±200 bp) were scanned for motifs from the CollecTF (bacterial TF motifs) database using default options (). […]
The Verrucomicrobia LexA Binding Motif: Insights into the Evolutionary Dynamics of the SOS Response
[…] Experimentally validated LexA-binding motifs were downloaded from the CollecTF database (CollecTF, RRID:SCR_014405; Kiliç et al., ). Whole genome shotgun assemblies for Verrucomicrobia species with total sequence lengths larger than or equal to the smallest complete Ver […]
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