ArticleNucleic acids research2002
EZ-Retrieve: a web-server for batch retrieval of coordinate-specified human DNA sequences and underscoring putative transcription factor-binding sites.
Article in Nucleic acids research, 2002. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- ALU repeats in promoters are position-dependent co-response elements (coRE) that enhance or repress transcription by dimeric and monomeric progesterone receptors.Molecular endocrinology (Baltimore, Md.) · 2009Article
- Ageing, oxidative stress and cancer: paradigms in parallax.Nature reviews. Cancer · 2008Review
- STIF: Identification of stress-upregulated transcription factor binding sites in Arabidopsis thaliana.Bioinformation · 2008Article
- ExtraTrain: a database of Extragenic regions and Transcriptional information in prokaryotic organisms.BMC microbiology · 2006Article
- Reliable prediction of transcription factor binding sites by phylogenetic verification.Proceedings of the National Academy of Sciences of the United States of America · 2005Article
- Expression profiling of human hepatoma cells reveals global repression of genes involved in cell proliferation, growth, and apoptosis upon infection with parvovirus H-1.Journal of virology · 2005Article
- Transcriptional networks and cellular senescence in human mammary fibroblasts.Molecular biology of the cell · 2005Article
- BEARR: Batch Extraction and Analysis of cis-Regulatory Regions.Nucleic acids research · 2004Article
- PromoSer: improvements to the algorithm, visualization and accessibility.Nucleic acids research · 2004Article
- FIE2: A program for the extraction of genomic DNA sequences around the start and translation initiation site of human genes.Nucleic acids research · 2003Article
- PromoSer: A large-scale mammalian promoter and transcription start site identification service.Nucleic acids research · 2003Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
The availability of a draft human genome sequence and ability to monitor the transcription of thousands of genes with DNA microarrays has necessitated the need for new computational tools that can analyze cis-regulatory elements controlling genes that display similar expression patterns. We have developed a tool designated EZ-Retrieve that can: (i) retrieve any particular region of human genome sequence from the NCBI database and (ii) analyze retrieved sequences for putative transcription factor-binding sites (TFBSs) as they appear on the TRANSFAC database. The tool is web-based, user-friendly and offers both batch sequence retrieval and batch TFBS prediction. A major application of EZ-Retrieve is the analysis of co-expressed genes that are highlighted as expression clusters in DNA microarray experiments.
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Registered trials
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