| Title | cneViewer: a database of conserved non-coding elements for studies of tissue-specific gene regulation. |
| Publication Type | Journal Article |
| Year of Publication | 2008 |
| Authors | Persampieri, J, Ritter, DI, Lees, D, Lehoczky, J, Li, Q, Guo, S, Chuang, JH |
| Journal | Bioinformatics |
| Volume | 24 |
| Issue | 20 |
| Pagination | 2418-9 |
| Date Published | 2008 Oct 15 |
| ISSN | 1367-4811 |
| Keywords | Animals, Base Sequence, Computational Biology, Conserved Sequence, Databases, Genetic, DNA, Gene Expression Regulation, Humans, Internet, Molecular Sequence Data, Regulatory Sequences, Nucleic Acid, Software, Zebrafish |
| Abstract | There are thousands of strongly conserved non-coding elements (CNEs) in vertebrate genomes, and their functions remain largely unknown. However, without biologically relevant criteria for prioritizing them, selecting a particular CNE sequences to study can be haphazard. To address this problem, we present cneViewer-a database and webtool that systematizes information on conserved non-coding DNA elements in zebrafish. A key feature here is the ability to search for CNEs that may be relevant to tissue-specific gene regulation, based on known developmental expression patterns of nearby genes. cneViewer provides this and other organizing features that significantly facilitate experimental design and CNE analysis.
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| DOI | 10.1093/bioinformatics/btn443 |
| Alternate Journal | Bioinformatics |
| PubMed ID | 18718943 |
| PubMed Central ID | PMC2562007 |
| Grant List | R21-HD051835 / HD / NICHD NIH HHS / United States |