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ChickGCE: A novel germ cell EST database for studying the early developmental stage in chickens

Cited 9 time in Web of Science Cited 8 time in Scopus
Authors
Kim, Heebal; Lim, Dajeong; Han, Beom Ku; Sung, Samsun; Jeon, Mina; Moon, Sunjin; Kang, Yeonkyung; Nam, Jungrye; Han, Jae Yong
Issue Date
2006
Publisher
Elsevier
Citation
Genomics, vol.88 no.2, pp. 252-257
Keywords
chickengerm cellembryonic gonadEST database
Abstract
We established a database to study germ cells during the early developmental stage in the chicken. The ChickGCE database provides integrated expressed sequence tag (EST) data from chicken testis, ovary, embryonic gonads, and primordial germ cells. We gathered data on 10,294 ESTs from approximately 1000 embryonic gonads, and we experimentally determined 10,851 ESTs from primordial germ cells purified from 7955 embryonic gonads by magnetically activated cell sorting. The EST testis and ovary datasets were retrieved from the public database of The Institute for Genomic Research (TIGR). The EST data were clustered and assembled into unique sequences, contigs, and singletons. The ChickGCE database provides functional annotation, identification, and putative embryonic germ-cell-specific novel transcripts based on the Gene Ontology database, as well as statistical analyses of expression patterns and pair-wise comparisons of two types of tissue- and germ-cell-specific alternative splicing events in the chicken. The new database is accessible online and queries can be answered using several search options, including tissue database searches, keywords, clone IDs, expected values, and BLAST search scores.
ISSN
0888-7543
Language
English
URI
http://hdl.handle.net/10371/100227
DOI
https://doi.org/10.1016/j.ygeno.2006.03.015
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College of Agriculture and Life Sciences (농업생명과학대학)Dept. of Food and Animal Biotechnology (식품·동물생명공학부)Journal Papers (저널논문_식품·동물생명공학부)
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