SilkDB: a knowledgebase for silkworm biology and genomics.
The Silkworm Knowledgebase (SilkDB) is a web-based repository for the curation, integration and study of silkworm genetic and genomic data. With the recent accomplishment of a approximately 6X draft genome sequence of the domestic silkworm (Bombyx mori), SilkDB provides an integrated representation of the large-scale, genome-wide sequence assembly, cDNAs, clusters of expressed sequence tags (ESTs), transposable elements (TEs), mutants, single nucleotide polymorphisms (SNPs) and functional annotations of genes with assignments to InterPro domains and Gene Ontology (GO) terms. SilkDB also hosts a set of ESTs from Bombyx mandarina, a wild progenitor of B.mori, and a collection of genes from other Lepidoptera. Comparative analysis results between the domestic and wild silkworm, between B.mori and other Lepidoptera, and between B.mori and the two sequenced insects, fruitfly and mosquito, are displayed by using B.mori genome sequence as a reference framework. Designed as a basic platform, SilkDB strives to provide a comprehensive knowledgebase about the silkworm and present the silkworm genome and related information in systematic and graphical ways for the convenience of in-depth comparative studies. SilkDB is publicly accessible at http://silkworm.genomics.org.cn.
Wang
Jing
J
College of Life Sciences, Peking University, Beijing 100871, China.
Xia
Qingyou
Q
He
Ximiao
X
Dai
Mingtao
M
Ruan
Jue
J
Chen
Jie
J
Yu
Guo
G
Yuan
Haifeng
H
Hu
Yafeng
Y
Li
Ruiqiang
R
Feng
Tao
T
Ye
Chen
C
Lu
Cheng
C
Wang
Jun
J
Li
Songgang
S
Wong
Gane Ka-Shu
GK
Yang
Huanming
H
Wang
Jian
J
Xiang
Zhonghuai
Z
Zhou
Zeyang
Z
Yu
Jun
J
D000818:Animals; D012831:Bombyx / Q000235:genetics* / Q000502:physiology; D030561:Databases, Nucleic Acid; D023281:Genomics; D020407:Internet; D007915:Lepidoptera / Q000235:genetics; D014584:User-Computer Interface