PBmice: an integrated database system of piggyBac (PB) insertional mutations and their characterizations in mice.

Published

Journal Article

DNA transposon piggyBac (PB) is a newly established mutagen for large-scale mutagenesis in mice. We have designed and implemented an integrated database system called PBmice (PB Mutagenesis Information CEnter) for storing, retrieving and displaying the information derived from PB insertions (INSERTs) in the mouse genome. This system is centered on INSERTs with information including their genomic locations and flanking genomic sequences, the expression levels of the hit genes, and the expression patterns of the trapped genes if a trapping vector was used. It also archives mouse phenotyping data linked to INSERTs, and allows users to conduct quick and advanced searches for genotypic and phenotypic information relevant to a particular or a set of INSERT(s). Sequence-based information can be cross-referenced with other genomic databases such as Ensembl, BLAST and GBrowse tools used in PBmice offer enhanced search and display for additional information relevant to INSERTs. The total number and genomic distribution of PB INSERTs, as well as the availability of each PB insertional LINE can also be viewed with user-friendly interfaces. PBmice is freely available at http://www.idmshanghai.cn/PBmice or http://www.scbit.org/PBmice/.

Full Text

Duke Authors

Cited Authors

  • Sun, LV; Jin, K; Liu, Y; Yang, W; Xie, X; Ye, L; Wang, L; Zhu, L; Ding, S; Su, Y; Zhou, J; Han, M; Zhuang, Y; Xu, T; Wu, X; Gu, N; Zhong, Y

Published Date

  • January 2008

Published In

Volume / Issue

  • 36 / Database issue

Start / End Page

  • D729 - D734

PubMed ID

  • 17932058

Pubmed Central ID

  • 17932058

Electronic International Standard Serial Number (EISSN)

  • 1362-4962

Digital Object Identifier (DOI)

  • 10.1093/nar/gkm790

Language

  • eng

Conference Location

  • England