ArticlePloS one2010
Identification of cis-regulatory elements in the mammalian genome: the cREMaG database.
Article in PloS one, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers, 1 of them a synthesis that pooled it.
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Who cites it
14 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Pooled it
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- Adult Deletion of SRF Increases Epileptogenesis and Decreases Activity-Induced Gene Expression.Molecular neurobiology · 2016Article
- Seqinspector: position-based navigation through the ChIP-seq data landscape to identify gene expression regulators.BMC bioinformatics · 2016Article
- Article
- Application of Comparative Transcriptional Genomics to Identify Molecular Targets for Pediatric IBD.Frontiers in immunology · 2015Article
- Novel drug-regulated transcriptional networks in brain reveal pharmacological properties of psychotropic drugs.BMC genomics · 2013Article
- Nencki Genomics Database--Ensembl funcgen enhanced with intersections, user data and genome-wide TFBS motifs.Database : the journal of biological databases and curation · 2013Article
- Analysis of region-specific changes in gene expression upon treatment with citalopram and desipramine reveals temporal dynamics in response to antidepressant drugs at the transcriptome level.Psychopharmacology · 2012Article
- oPOSSUM-3: advanced analysis of regulatory motif over-representation across genes or ChIP-Seq datasets.G3 (Bethesda, Md.) · 2012Article
- Mutations in the mitochondrial methionyl-tRNA synthetase cause a neurodegenerative phenotype in flies and a recessive ataxia (ARSAL) in humans.PLoS biology · 2012Article
- Conserved host response to highly pathogenic avian influenza virus infection in human cell culture, mouse and macaque model systems.BMC systems biology · 2011Article
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Authors and funding
3 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundA growing number of gene expression-profiling datasets provides a reliable source of information about gene co-expression. In silico analyses of the properties shared among the promoters of co-expressed genes facilitates the identification of transcription factors (TFs) involved in the co-regulation of those genes. Our previous experience with microarray data led to the development of a database suitable for the examination of regulatory motifs in the promoters of co-expressed genes. METHODOLOGY: We introduce the cREMaG (cis-Regulatory Elements in the Mammalian Genome) system designed for in silico studies of the promoter properties of co-regulated mammalian genes. The cREMaG system offers an analysis of data obtained from human, mouse, rat, bovine and canine gene expression-profiling studies. More than eight analysis parameters can be utilized in user-defined combinations. The selection of alternative transcription start sites and information about CpG islands are also available.
conclusionsUsing the cREMaG system, we successfully identified TFs mediating transcriptional responses in reference gene sets. The cREMaG system facilitates in silico studies of mammalian transcriptional gene regulation. The resource is freely available at http://www.cremag.org.
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