| Content | |
|---|---|
| Description | The PANTHER database classifies gene products into families |
| Data types captured | Gene families |
| Contact | |
| Research center | University of Southern California |
| Authors | Paul D Thomas |
| Primary citation | PMID 12520017 |
| Access | |
| Website | [1] |
| Miscellaneous | |
| Bookmarkable entities | yes |
In bioinformatics, the PANTHER (protein analysis through evolutionary relationships) classification system is a large curated biological database of gene/protein families and their functionally related subfamilies that can be used to classify and identify the function of gene products.[1] PANTHER is part of the Gene Ontology Reference Genome Project[2] designed to classify proteins and their genes for high-throughput analysis.
The project consists of both manual curation and bioinformatics algorithms.[3] Proteins are classified according to family (and subfamily), molecular function, biological process and pathway. It is one of the databases feeding into the European Bioinformatics Institute's InterPro database.[4]—Application of PANTHER—The most important application of PANTHER is to accurately infer the function of uncharacterized genes from any organism based on their evolutionary relationships to genes with known functions.[3] By combining gene function, ontology, pathways and statistical analysis tools, PANTHER enables biologists to analyze large-scale, genome-wide data obtained from the current advance technology including: sequencing, proteomics or gene expression experiments.[5] Shortly, using the data and tools on the PANTHER, users will be able to:[6]
- Obtain information about a particular gene of interest.
- Discover protein families and subfamilies, pathways, biological processes, molecular functions and cellular components.
- Create lists of genes related to a particular protein family/subfamily, molecular function, biological process or pathway.
- Analyze lists of genes, proteins or transcripts.
- ^ Thomas, PD.; Kejariwal, A.; Campbell, MJ.; Mi, H.; Diemer, K.; Guo, N.; Ladunga, I.; Ulitsky-Lazareva, B.; et al. (Jan 2003). "PANTHER: a browsable database of gene products organized by biological function, using curated protein family and subfamily classification". Nucleic Acids Res. 31 (1): 334–41. doi:10.1093/nar/gkg115. PMC 165562. PMID 12520017.
- ^ "GO Reference Genome Annotation Project".
- ^ a b Mi, H.; Muruganujan, A.; Thomas, PD. (Jan 2013). "PANTHER in 2013: modeling the evolution of gene function, and other gene attributes, in the context of phylogenetic trees". Nucleic Acids Res. 41 (Database issue): D377–86. doi:10.1093/nar/gks1118. PMC 3531194. PMID 23193289.
- ^ Hunter, S.; Jones, P.; Mitchell, A.; Apweiler, R.; Attwood, TK.; Bateman, A.; Bernard, T.; Binns, D.; et al. (Jan 2012). "InterPro in 2011: new developments in the family and domain prediction database". Nucleic Acids Res. 40 (Database issue): D306–12. doi:10.1093/nar/gkr948. PMC 3245097. PMID 22096229.
- ^ Mi, H.; Muruganujan, A.; Thomas, PD. (Aug 2013). "Large-scale gene function analysis with the PANTHER classification system". Nucleic Acids Res. 8 (8): 1551–66. doi:10.1038/nprot.2013.092. PMC 6519453. PMID 23868073.
- ^ "PANTHERdb".