cneViewer: a database of conserved non-coding elements for studies of tissue-specific gene regulation.
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.
Persampieri
Jason
J
Department of Biology, Boston College, Chestnut Hill, MA 02467, USA.
Ritter
Deborah I
DI
Lees
Daniel
D
Lehoczky
Jessica
J
Li
Qiang
Q
Guo
Su
S
Chuang
Jeffrey H
JH
D000818:Animals; D001483:Base Sequence; D019295:Computational Biology / Q000379:methods*; D017124:Conserved Sequence; D004247:DNA / Q000737:chemistry; D030541:Databases, Genetic; D005786:Gene Expression Regulation; D006801:Humans; D020407:Internet; D008969:Molecular Sequence Data; D012045:Regulatory Sequences, Nucleic Acid; D012984:Software; D015027:Zebrafish / Q000235:genetics*
D004247:DNA