RegulonDB v12.0: a comprehensive resource of transcriptional regulation in <i>E. coli</i> K-12-Reference-Cited by-同舟云学术

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

Published:2023-11-16 Issue:D1 Volume:52 Page:D255-D264
ISSN:0305-1048
Container-title:Nucleic Acids Research
language:en
Short-container-title:

Author:

Salgado Heladia¹^ORCID,Gama-Castro Socorro¹,Lara Paloma¹,Mejia-Almonte Citlalli¹,Alarcón-Carranza Gabriel¹,López-Almazo Andrés G¹,Betancourt-Figueroa Felipe¹,Peña-Loredo Pablo¹,Alquicira-Hernández Shirley¹,Ledezma-Tejeida Daniela¹^ORCID,Arizmendi-Zagal Lizeth¹,Mendez-Hernandez Francisco¹,Diaz-Gomez Ana K¹,Ochoa-Praxedis Elizabeth¹,Muñiz-Rascado Luis J¹,García-Sotelo Jair S²,Flores-Gallegos Fanny A¹,Gómez Laura³⁴,Bonavides-Martínez César¹,del Moral-Chávez Víctor M¹,Hernández-Alvarez Alfredo J¹,Santos-Zavaleta Alberto⁵,Capella-Gutierrez Salvador⁶^ORCID,Gelpi Josep Lluis⁷⁸^ORCID,Collado-Vides Julio¹⁸⁹^ORCID

Affiliation:

1. Centro de Ciencias Genómicas, Universidad Nacional Autónoma de México , Cuernavaca , Morelos 62210 , Mexico

2. Laboratorio Internacional de Investigación sobre el Genoma Humano, Universidad Nacional Autónoma de México , Querétaro 76230 , Querétaro, Mexico

3. Instituto Nacional de Medicina Genómica , Periférico Sur 4809, Arenal Tepepan, Tlalpan, 14610 Ciudad de México, Mexico

4. Escuela de Medicina, Tecnológico de Monterrey , Campus Ciudad de México, CDMX 14380 , Meéxico

5. Instituto de Energías Renovables, Universidad Nacional Autónoma de México , Temixco , Morelos 62580 , Meéxico

6. Barcelona Supercomputing Center (BSC) , Plaça Eusebi Güell, 1-3, 08034 , Barcelona , Spain

7. Department of Biochemistry and Molecular Biomedicine. Univ. of Barcelona. Av. Diagonal 643 , 08028, Barcelona , Spain

8. Centre for Genomic Regulation (CRG), Universitat Pompeu Fabra(UPF) , Dr. Aiguader 88, Barcelona, 08003 , Barcelona , Spain

9. Department of Biomedical Engineering, Boston University , 44 Cummington Mall. Boston , MA 02215 , USA

Abstract

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.

Funder

Universidad Nacional Autónoma de México

National Institute of General Medical Sciences

National Institutes of Health

Dirección General de Asuntos del Personal Académico—Universidad Nacional Autónoma de México

Sistema Nacional de Investigadores

Publisher

Oxford University Press (OUP)

Subject

Genetics

Link

https://academic.oup.com/nar/article-pdf/52/D1/D255/55039979/gkad1072.pdf

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