ArticleGenome research2002
Cross-referencing eukaryotic genomes: TIGR Orthologous Gene Alignments (TOGA).
Article in Genome research, 2002. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 56 papers.
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Who cites it
56 citing papers in PubMed.
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- Common and pathogen-specific virulence factors are different in function and structure.Virulence · 2013Article
- KEGG OC: a large-scale automatic construction of taxonomy-based ortholog clusters.Nucleic acids research · 2013Article
- Dynamic nucleotide-binding site and leucine-rich repeat-encoding genes in the grass family.Plant physiology · 2012Article
- Revealing mammalian evolutionary relationships by comparative analysis of gene clusters.Genome biology and evolution · 2012Article
- The other side of comparative genomics: genes with no orthologs between the cow and other mammalian species.BMC genomics · 2009Article
- Comparative transcriptomics in the Triticeae.BMC genomics · 2009Article
- Functional equivalency inferred from "authoritative sources" in networks of homologous proteins.PloS one · 2009Article
- E(mu)-TCL1 mice represent a model for immunotherapeutic reversal of chronic lymphocytic leukemia-induced T-cell dysfunction.Proceedings of the National Academy of Sciences of the United States of America · 2009Article
- Immunome knowledge base (IKB): an integrated service for immunome research.BMC immunology · 2009Article
- Multi-granularity Parallel Computing in a Genome-Scale Molecular Evolution Application.The Journal of supercomputing · 2009Article
- Proteomic identification and characterization of a novel peroxisomal adenine nucleotide transporter supplying ATP for fatty acid beta-oxidation in soybean and Arabidopsis.The Plant cell · 2008Article
- Large-scale assignment of orthology: back to phylogenetics?Genome biology · 2008Review
- Automatically extracting functionally equivalent proteins from SwissProt.BMC bioinformatics · 2008Article
- Characterization and comparison of intron structure and alternative splicing between Medicago truncatula, Populus trichocarpa, Arabidopsis and rice.Plant molecular biology · 2008Article
- De-orphaning the structural proteome through reciprocal comparison of evolutionarily important structural features.PloS one · 2008Article
- Clustering of cognate proteins among distinct proteomes derived from multiple links to a single seed sequence.BMC bioinformatics · 2008Article
- Human PAML browser: a database of positive selection on human genes using phylogenetic methods.Nucleic acids research · 2008Article
Corrections and comments
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Authors and funding
13 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Comparative genomics promises to rapidly accelerate the identification and functional classification of biologically important human genes. We developed the TIGR Orthologous Gene Alignment (TOGA; <http://www.tigr.org/tdb/toga/toga.shtml>) database to provide a cross-reference between fully and partially sequenced eukaryotic transcribed sequences. Starting with the assembled expressed sequence tag (EST) and gene sequences that comprise the 28 TIGR Gene Indices, we used high-stringency pair-wise sequence searches and a reflexive, transitive closure process to associate sequence-specific best hits, generating 32,652 tentative ortholog groups (TOGs). This has allowed us to identify putative orthologs and paralogs for known genes, as well as those that exist only as uncharacterized ESTs and to provide links to additional information including genome sequence and mapping data. TOGA provides an important new resource for the analysis of gene function in eukaryotes. In addition, an analysis of the most widely represented sequences can begin to provide insight into eukaryotic biological processes.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.