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CREPE: a Shiny app for transcription factor cataloguing.

ABSTRACT:

Summary

Transcription factors (TFs) are proteins that directly interpret the genome to regulate gene expression and determine cellular phenotypes. TF identification is a common first step in unraveling gene regulatory networks. We present CREPE, an R Shiny app to catalogue and annotate TFs. CREPE was benchmarked against curated human TF datasets. Next, we use CREPE to explore the TF repertoires of Heliconius erato and Heliconius melpomene butterflies.

Availability and implementation

CREPE is available as a Shiny app package available at GitHub (github.com/dirostri/CREPE).

Supplementary information

Supplementary data are available at Bioinformatics Advances online.

SUBMITTER: Rosado-Tristani DA

PROVIDER: S-EPMC10162806 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature

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CREPE: a Shiny app for transcription factor cataloguing.

Rosado-Tristani Diego A DA Rodríguez-Martínez José A JA

Bioinformatics advances 20230421 1

<h4>Summary</h4>Transcription factors (TFs) are proteins that directly interpret the genome to regulate gene expression and determine cellular phenotypes. TF identification is a common first step in unraveling gene regulatory networks. We present CREPE, an R Shiny app to catalogue and annotate TFs. CREPE was benchmarked against curated human TF datasets. Next, we use CREPE to explore the TF repertoires of <i>Heliconius erato</i> and <i>Heliconius melpomene</i> butterflies.<h4>Availability and im ...[more]

PMID: 37153629

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