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PigGIS


NAR Molecular Biology Database Collection entry number 936
Ruan J.1,2, Guo Y.1,2, Li H.1, Hu Y.1, Song F.1, Huang X.1, Ma L.1,2, Kristiensen K.3, Bolund L.1,4 and Wang J.1,3,4
1Beijing Institute of Genomics of the Chinese Academy of Sciences, Beijing Genomics Institute, Beijing 101300, China
2Graduate University of the Chinese Academy of Sciences, Yuquan Road 19A, Beijing 100039, China
3Department of Biochemistry and Molecular Biology, University of Southern Denmark, DK-5230 Odense M, Denmark
4Institute of Human Genetics, University of Aarhus, DK-8000 Aarhus C, Denmark

Database Description

PigGIS is a web-based depository of pig (Sus scrofa) genomic learning mainly engineered for biomedical research to locate pig genes from their human homologs and position Single Nucleotide Polymorphisms (SNPs) in different pig populations. It utilizes a variety of sequence data, including Whole Genome Shotgun (WGS) reads and Expressed Sequence Tags (ESTs), and achieves a successful mapping solution to the low-coverage genome problem.

Recent Developments

With the data presently available we have identified a total of 15.7 thousand pig consensus sequences covering 18.5 Mbp of the homologous human exons. We have also recovered 18.7 thousand SNPs and 20.8 thousand unique 60-mer oligonucleotide probes for future pig genome analyses.

Acknowledgements

This project was supported by Chinese Academy of Sciences (GJHZ0518), Ministry of Science and Technology under program CNGI-04-15-7A, Ministry of Education (XXBKYHT2006001), National Natural Science Foundation of China (90608010; 90208019; 90403130; 30221004; 90612019), and China National Grid.
It was also supported from the Danish Platform for Integrative Biology, an Ole R?mer grants from the Danish Natural Science Research Council and the National Science Foundation (DBI 0217241).

References

1. J. Ruan, Y. Guo, H. Li, Y. Hu, F. Song, X. Huang, L. Ma, K. Kristiensen, L. Bolund & J. Wang (2007) PigGIS: Pig Genomic Informatics System. Nucleic Acids Res. 35: in press


Go to the abstract in the NAR 2007 Database Issue.
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