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RegulonDB

General Information

RegulonDB is a model of the complex regulation of transcription initiation or regulatory network of the cell. On the other hand, it is also a model of the organization of the genes in transcription units, operons and simple and complex regulons. In this regard, RegulonDB is a computational model of mechanisms of transcriptional regulation.

Homepage http://regulondb.ccg.unam.mx/

Countries that developed this resource Mexico

Created in 1998

Taxonomic range

Escherichia coli

Knowledge Domains

Subjects

How to cite this record FAIRsharing.org: RegulonDB; RegulonDB; DOI: https://doi.org/10.25504/FAIRsharing.f0awr5; Last edited: April 26, 2021, 3:53 p.m.; Last accessed: Oct 27 2021 5:10 p.m.

This record is maintained by Heladia_Salgado

Record updated: April 20, 2021, 9:41 a.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.f0awr5' by 'The FAIRsharing Team' at 09:41, 20 Apr 2021 (approved):

	'licences' has been modified:
		Before:
			Academic use||Data
			Attribution required||Data
			No commercial use without permission||Data
			RegulonDB End User Agreement and Licence|http://regulondb.ccg.unam.mx/menu/download/full_version/terms_and_conditions.jsp|Data
		After:
			RegulonDB Academic use|http://regulondb.ccg.unam.mx/menu/download/full_version/terms_and_conditions.jsp|Data
			RegulonDB Attribution required|http://regulondb.ccg.unam.mx/menu/download/full_version/terms_and_conditions.jsp|Data
			RegulonDB No commercial use without permission|http://regulondb.ccg.unam.mx/menu/download/full_version/terms_and_conditions.jsp|Data
			RegulonDB End User Agreement and Licence|http://regulondb.ccg.unam.mx/menu/download/full_version/terms_and_conditions.jsp|Data
		Added:
			RegulonDB Academic use|http://regulondb.ccg.unam.mx/menu/download/full_version/terms_and_conditions.jsp|Data
			RegulonDB Attribution required|http://regulondb.ccg.unam.mx/menu/download/full_version/terms_and_conditions.jsp|Data
			RegulonDB No commercial use without permission|http://regulondb.ccg.unam.mx/menu/download/full_version/terms_and_conditions.jsp|Data
		Removed:
			Academic use||Data
			Attribution required||Data
			No commercial use without permission||Data

	'publications' has been modified:
		Before:
			RegulonDB version 7.0: transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (Gensor Units).|Gama-Castro S., Salgado H., Peralta-Gil M., Santos-Zavaleta A., Muiz-Rascado L., Solano-Lira H., Jimenez-Jacinto V., Weiss V., Garca-Sotelo JS., Lpez-Fuentes A., Porrn-Sotelo L., Alquicira-Hernndez S., Medina-Rivera A., Martnez-Flores I., Alquicira-Hernndez K., Martnez-Adame R., Bonavides-Martnez C., Miranda-Ros J., Huerta AM., Mendoza-Vargas A., Collado-Torres L., Taboada B., Vega-Alvarado L., Olvera M., Olvera L., Grande R., Morett E., Collado-Vides J., |Nucleic Acids Res.|2011
			RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more.|Salgado H,Peralta-Gil M,Gama-Castro S,Santos-Zavaleta A,Muniz-Rascado L,Garcia-Sotelo JS,Weiss V,Solano-Lira H,Martinez-Flores I,Medina-Rivera A,Salgado-Osorio G,Alquicira-Hernandez S,Alquicira-Hernandez K,Lopez-Fuentes A,Porron-Sotelo L,Huerta AM,Bonavides-Martinez C,Balderas-Martinez YI,Pannier L,Olvera M,Labastida A,Jimenez-Jacinto V,Vega-Alvarado L,Del Moral-Chavez V,Hernandez-Alvarez A,Morett E,Collado-Vides J|Nucleic Acids Res|2012
			RegulonDB version 9.0: high-level integration of gene regulation, coexpression, motif clustering and beyond.|Gama-Castro S,Salgado H,Santos-Zavaleta A,Ledezma-Tejeida D,Muniz-Rascado L,Garcia-Sotelo JS,Alquicira-Hernandez K,Martinez-Flores I,Pannier L,Castro-Mondragon JA,Medina-Rivera A,Solano-Lira H,Bonavides-Martinez C,Perez-Rueda E,Alquicira-Hernandez S,Porron-Sotelo L,Lopez-Fuentes A,Hernandez-Koutoucheva A,Del Moral-Chavez V,Rinaldi F,Collado-Vides J|Nucleic Acids Res|2015
		After:
			RegulonDB version 7.0: transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (Gensor Units).|Gama-Castro S., et al.|Nucleic Acids Res.|2011
			RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more.|Salgado H, et al.|Nucleic Acids Res|2012
			RegulonDB version 9.0: high-level integration of gene regulation, coexpression, motif clustering and beyond.|Gama-Castro S, et al.|Nucleic Acids Res|2015
		Added:
			RegulonDB version 7.0: transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (Gensor Units).|Gama-Castro S., et al.|Nucleic Acids Res.|2011
			RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more.|Salgado H, et al.|Nucleic Acids Res|2012
			RegulonDB version 9.0: high-level integration of gene regulation, coexpression, motif clustering and beyond.|Gama-Castro S, et al.|Nucleic Acids Res|2015
		Removed:
			RegulonDB version 7.0: transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (Gensor Units).|Gama-Castro S., Salgado H., Peralta-Gil M., Santos-Zavaleta A., Muiz-Rascado L., Solano-Lira H., Jimenez-Jacinto V., Weiss V., Garca-Sotelo JS., Lpez-Fuentes A., Porrn-Sotelo L., Alquicira-Hernndez S., Medina-Rivera A., Martnez-Flores I., Alquicira-Hernndez K., Martnez-Adame R., Bonavides-Martnez C., Miranda-Ros J., Huerta AM., Mendoza-Vargas A., Collado-Torres L., Taboada B., Vega-Alvarado L., Olvera M., Olvera L., Grande R., Morett E., Collado-Vides J., |Nucleic Acids Res.|2011
			RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more.|Salgado H,Peralta-Gil M,Gama-Castro S,Santos-Zavaleta A,Muniz-Rascado L,Garcia-Sotelo JS,Weiss V,Solano-Lira H,Martinez-Flores I,Medina-Rivera A,Salgado-Osorio G,Alquicira-Hernandez S,Alquicira-Hernandez K,Lopez-Fuentes A,Porron-Sotelo L,Huerta AM,Bonavides-Martinez C,Balderas-Martinez YI,Pannier L,Olvera M,Labastida A,Jimenez-Jacinto V,Vega-Alvarado L,Del Moral-Chavez V,Hernandez-Alvarez A,Morett E,Collado-Vides J|Nucleic Acids Res|2012
			RegulonDB version 9.0: high-level integration of gene regulation, coexpression, motif clustering and beyond.|Gama-Castro S,Salgado H,Santos-Zavaleta A,Ledezma-Tejeida D,Muniz-Rascado L,Garcia-Sotelo JS,Alquicira-Hernandez K,Martinez-Flores I,Pannier L,Castro-Mondragon JA,Medina-Rivera A,Solano-Lira H,Bonavides-Martinez C,Perez-Rueda E,Alquicira-Hernandez S,Porron-Sotelo L,Lopez-Fuentes A,Hernandez-Koutoucheva A,Del Moral-Chavez V,Rinaldi F,Collado-Vides J|Nucleic Acids Res|2015

Edits to 'https://fairsharing.org/FAIRsharing.f0awr5' by 'Heladia_Salgado' at 06:13, 30 Aug 2018 (approved):

	'contactEmail' has been modified:
		Before: 
		After: regulondb@ccg.unam.mx

	'contact' has been modified:
		Before: 
		After: Julio Collado Vides

	'supportLinks' has been modified:
		Before:
			contact form|http://regulondb.ccg.unam.mx/menu/about_regulondb/contact_us/index.jsp
		After:
			contact form|http://regulondb.ccg.unam.mx/menu/about_regulondb/contact_us/index.jsp
			email|regulondb@ccg.unam.mx
			wikipedia|https://en.wikipedia.org/wiki/RegulonDB
		Added:
			email|regulondb@ccg.unam.mx
			wikipedia|https://en.wikipedia.org/wiki/RegulonDB
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.f0awr5' by 'Heladia_Salgado' at 18:55, 06 Apr 2018 (approved):

	'miriam_url' has been modified:
		Before: None
		After:

Edits to 'https://fairsharing.org/FAIRsharing.f0awr5' by 'The FAIRsharing Team' at 23:26, 12 Dec 2016 (approved):

	'shortname' has been modified:
		Before: RegulonDB
		After:

Support

General

contact form	http://regulondb.ccg.unam.mx/menu/about_ ...
support email	RegulonDB Team
wikipedia	RegulonDB wikipedia

Additional Information

Contact

Julio Collado Vides

Tools

No tools defined

Access / Retrieve Data

Conditions of Use

Applies to: Data use

RegulonDB End User Agreement and Licence

Publications

RegulonDB version 7.0: transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (Gensor Units).

Gama-Castro S., et al.
Nucleic Acids Res. 2011

View Paper (PubMed)

RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more.

Salgado H, et al.
Nucleic Acids Res 2012

View Paper (PubMed) View Publication

RegulonDB version 9.0: high-level integration of gene regulation, coexpression, motif clustering and beyond.

Gama-Castro S, et al.
Nucleic Acids Res 2015

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by Heladia_Salgado

Funds

Consejo Nacional de Ciencia y Tecnologia (CONACyT), Mexico City, Mexico (Government body)
National Institutes of Health (NIH), Bethesda, MD, USA (Government body)

Maintains

The National Autonomous University of Mexico at the Center for Genomic Sciences (Research institute)
University of Mexico (University)

Grant Number(s)

2U24GM077678-24A1 (National Institutes of Health (NIH), Bethesda, MD, USA)
R01GM110597 (National Institutes of Health (NIH), Bethesda, MD, USA)

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