Full-length pig cDNA libraries and ESTs
Recent develoments :
The stored porcine ESTs are more than 160 000. We fully sequenced the inserts of 10 147 of the cDNA clones that had undergone EST analysis; the sequences and annotation of the cDNA clones and ESTs are stored in the database.
This database is constructed and maintained with support by the Animal Genome Research Project and the Food Traceability Research Project of the Ministry of Agriculture, Forestry and Fisheries of Japan and by a Grant-in-Aid from the Japan Racing Association.
1. Uenishi H, Eguchi T, Suzuki K, Sawazaki T, Toki D, Shinkai H, Okumura N, Hamasima N, Awata T (2004) PEDE (Pig EST Data Explorer): construction of a database for ESTs derived from porcine full-length cDNA libraries. Nucleic Acids Res. 32: D484-D488.
2. Uenishi H, Eguchi-Ogawa T, Shinkai H, Okumura N, Suzuki K, Toki D, Hamasima N, Awata T (2007) PEDE (Pig EST Data Explorer) has been expanded into Pig Expression Data Explorer, including 10 147 porcine full-length cDNA sequences. Nucleic Acids Res. 35: in press
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 develoments :
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.
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).
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
The Centre for Applied Genomics is a Canadian centre for human genome and disease research. Resources include Genomic and cDNA library screening (human, mouse, dog, pig) provided free to Canadian academic researchers with a nominal clone retrieval fee. Also: Research Genetics, NIA/NIH and RIKEN cDNAs.