RegulonDB v12.0: a comprehensive resource of transcriptional regulation in E. coli K-12

• Published in: Nucleic acids research 2024-01, Vol.52 (D1), p.D255-D264
• Main Authors: Salgado, Heladia, Gama-Castro, Socorro, Lara, Paloma, Mejia-Almonte, Citlalli, Alarcón-Carranza, Gabriel, López-Almazo, Andrés G, Betancourt-Figueroa, Felipe, Peña-Loredo, Pablo, Alquicira-Hernández, Shirley, Ledezma-Tejeida, Daniela, Arizmendi-Zagal, Lizeth, Mendez-Hernandez, Francisco, Diaz-Gomez, Ana K, Ochoa-Praxedis, Elizabeth, Muñiz-Rascado, Luis J, García-Sotelo, Jair S, Flores-Gallegos, Fanny A, Gómez, Laura, Bonavides-Martínez, César, del Moral-Chávez, Víctor M, Hernández-Alvarez, Alfredo J, Santos-Zavaleta, Alberto, Capella-Gutierrez, Salvador, Gelpi, Josep Lluis, Collado-Vides, Julio
• Format: Article
• Language: English
• Subjects: Computational Biology - methods; Databases, Genetic; Escherichia coli K12 - genetics; Gene Expression Regulation, Bacterial; Internet; Transcription, Genetic
• ISSN: 0305-1048; 1362-4962; 1362-4962
• DOI: 10.1093/nar/gkad1072

Abstract RegulonDB is a database that contains the most comprehensive corpus of knowledge of the regulation of transcription initiation of Escherichia coli K-12, including data from both classical molecular biology and high-throughput methodologies. Here, we describe biological advances since our last NAR paper of 2019. We explain the changes to satisfy FAIR requirements. We also present a full reconstruction of the RegulonDB computational infrastructure, which has significantly improved data storage, retrieval and accessibility and thus supports a more intuitive and user-friendly experience. The integration of graphical tools provides clear visual representations of genetic regulation data, facilitating data interpretation and knowledge integration. RegulonDB version 12.0 can be accessed at https://regulondb.ccg.unam.mx. Graphical Abstract Graphical Abstract