ApiEST-DB: analyzing clustered EST data of the apicomplexan parasites.
ApiEST-DB (http://www.cbil.upenn.edu/paradbs-servlet/) provides integrated access to publicly available EST data from protozoan parasites in the phylum Apicomplexa. The database currently incorporates a total of nearly 100,000 ESTs from several parasite species of clinical and/or veterinary interest, including Eimeria tenella, Neospora caninum, Plasmodium falciparum, Sarcocystis neurona and Toxoplasma gondii. To facilitate analysis of these data, EST sequences were clustered and assembled to form consensus sequences for each organism, and these assemblies were then subjected to automated annotation via similarity searches against protein and domain databases. The underlying relational database infrastructure, Genomics Unified Schema (GUS), enables complex biologically based queries, facilitating validation of gene models, identification of alternative splicing, detection of single nucleotide polymorphisms, identification of stage-specific genes and recognition of phylogenetically conserved and phylogenetically restricted sequences.
Li
Li
L
Department of Biology, Center for Bioinformatics, University of Pennsylvania, Philadelphia, PA 19104, USA.
Crabtree
Jonathan
J
Fischer
Steve
S
Pinney
Deborah
D
Stoeckert
Christian J
CJ
Sibley
L David
LD
Roos
David S
DS
D000818:Animals; D016782:Apicomplexa / Q000235:genetics*; D019295:Computational Biology; D030541:Databases, Genetic; D020224:Expressed Sequence Tags; D023281:Genomics; D020407:Internet; D010802:Phylogeny; D040901:Proteomics