Predictive biophysical neural network modeling of a compendium of in vivo transcription factor DNA binding profiles for Escherichia coli

Predictive biophysical neural network modeling of a compendium of in vivo transcription factor DNA binding profiles for Escherichia coli

Abstract The DNA binding of most Escherichia coli Transcription Factors (TFs) has not been comprehensively mapped, and few have models that can quantitatively predict binding affinity. We report the global mapping of in vivo DNA binding for 139 E. coli TFs using ChIP-Seq. We use these data to train...

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Bibliographic Details
Main Authors: Patrick Lally, Laura Gómez-Romero, Víctor H. Tierrafría, Patricia Aquino, Claire Rioualen, Xiaoman Zhang, Sunyoung Kim, Gabriele Baniulyte, Jonathan Plitnick, Carol Smith, Mohan Babu, Julio Collado-Vides, Joseph T. Wade, James E. Galagan
Format: Article
Language:English
Published: Nature Portfolio 2025-05-01
Series:Nature Communications
Online Access:https://doi.org/10.1038/s41467-025-58862-8
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