H-InvDB Official Web Site
H-InvDB

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H-Invitational Database (H-InvDB),
an integrated database of human genes and transcripts.

By extensive analyses of all human transcripts, we provide curated annotations of human genes and transcripts that include gene structures, alternative splicing isoforms, non-coding functional RNAs, protein functions, functional domains, sub-cellular localizations, metabolic pathways, protein 3D structure, genetic polymorphisms (SNPs, indels and microsatellite repeats) , relation with diseases, gene expression profiling, and molecular evolutionary features , protein-protein interactions (PPIs) and gene families/groups.
This database is produced by the "Genome Information Integration Project" (2005-) based upon the annotation technology established in the H-Invitational Project for annotation of human full-length cDNAs. 		Click here to jump to H-InvDB !!
H-Invitational Database 6.2

What's new

  • [28-DEC-09] DDBJ server is closing
    The H-InvDB at the DDBJ site will be closed on December 31, 2009.
    Please use the BIRC site (http://h-invitational.jp/hinv/ahg-db/index.jsp).

  • [07-NOV-09] Presentations and exhibition (booth No.139)at BMB2009.
    We present H-InvDB and MEDALS at BMB2009. (Dec. 9-12, at Pacifico Yokohama)
    URL: http://h-invitational.jp/bmb2009_en.html

  • [08-APR-09] New open of HEAT
    H-InvDB Enrichment Analysis Tool (HEAT), a new tool for GSEA, was released.
    URL: http://hinv.jp/HEAT/

  • [30-MAR-09] H-InvDB Rel. 6.2 released.
    The features of this minor release include:
    - 219,765 human transcripts in 43,161 human gene clusters (loci).
    - "Topic annotation for NEDO FL-cDNA Annotation PJ" page newly open.
    - G-integra "Comparative mapping track" newly open.
    - Evola "Cross-species mapping (CSM) view" newly open.
    - tie-up with GlycoGene DataBase (GGDB)
    - Annotation data for the molecular evolution (Evola), disease relation (DiseaseInfo Viewer), gene expression (H-ANGEL) and polymorphism were released.
    - updates of IDs of the external databases (HUGO, EntrezGene).
    - "Statistics"page newly open.

  • [06-FEB-09] Major update of the portal site about databases/tools for life science (medals.jp)
    Major update of the portal site that provides various information on databases and analysis tools for life science which were developed by the projects directly sponsored by METI, or developed by the Institutes sponsored by METI. The name of the site, "MEDALS", stands for METI Database portal for Life Science.
    URL: http://medals.jp/etop
    This project "life science database integration project", commissioned by METI, aims to facilitate the research and development in both industry and academia.

The main papers:

  1. H-InvDB in 2009: extended database and data mining resources for human genes and transcripts. Yamasaki C, et al. (2010) Nucleic Acids Research Jan;38(Database issue):D626-32.
  2. The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts. Yamasaki C, et al. (2008) Nucleic Acids Research 36, Database issue D793-D799.
  3. Integrative Annotation of 21,037 Human Genes Validated by Full-Length cDNA Clones. T. Imanishi et al. (2004) PLoS Biology 2 (6), 856-875.

Related papers:

  1. VarySysDB: a human genetic polymorphism database based on all H-InvDB transcripts. Shimada MK, et al. (2008) Nucleic Acids Research 37(Database issue):D810-5
  2. Distribution and effects of nonsense polymorphisms in human genes. Yamaguchi-Kabata Y, et al. (2008) PLOS One2008;3(10):e3393
  3. Low conservation and species-specific evolution of alternative splicing in humans and mice: comparative genomics analysis using well-annotated full-length cDNAs Takeda J, et al. (2008) Nucleic Acids Research2008 Nov;36(20):6386-95.
  4. Diversity of preferred nucleotide sequences around the translation initiation codon in eukaryote genomes. Nakagawa S, et al. (2008) Nucleic Acids Research
  5. Evola: Ortholog database of all human genes in H-InvDB with manual curation of phylogenetic trees. Matsuya A, et al. (2008) Nucleic Acids Research 36, Database issue D787-D792.
  6. Mapping of chimpanzee full-length cDNAs onto the human genome unveils large potential divergence of the transcriptome. Sakate R, et al. (2007) Gene 399(1): 1-10.
  7. Frequent emergence and functional resurrection of processed pseudogenes in the human and mouse genomes. Sakai H, et al. (2007) Gene 389(2) 196-203.
  8. H-DBAS: Alternative splicing database of completely sequenced and manually annotated full-length cDNAs based on H-Invitational. Takeda, J. et al. (2007) Nucleic Acids Research 35, Database issue D104-D109.
  9. Large-scale identification and characterization of alternative splicing variants of human gene transcripts using 56 419 completely sequenced and manually annotated full-length cDNAs. Takeda, J. et al. (2006) Nucleic Acids Research 34 (14), 3917-3928.
  10. Alternative splicing in human transcriptome: Functional and structural influence on proteins. Yura, K. et al. (2006) Gene 380 (2), 63-71.
  11. TACT: Transcriptome Auto-annotation Conducting Tool of H-InvDB, Yamasaki C. et al. (2006) Nucleic Acids Research 34 Web Server issue W345-W349.
  12. Investigation of protein functions through data-mining on integrated human transcriptome database, H-Invitational Database (H-InvDB). Yamasaki C. et al. (2005) Gene 364, 99-107.
  13. A web tool for comparative genomics: G-compass. Fujii Y. et al.(2005) Gene 364, 45-52.
  14. Comparative genomics of bidirectional gene pairs and its implications for the evolution of a transcriptional regulation system. Koyanagi K.O. et al. (2005) Gene 353 (2), 169-176.
  15. Large-scale analysis of human alternative protein isoforms: pattern classification and correlation with subcellular localization signals M. Nakao et al. (2005) Nucleic Acids Research 33 (8), 2355-2363.
  16. The Human Anatomic Gene Expression Library (H-ANGEL), the H-Inv integrative display of human gene expression across disparate technologies and platforms. M. Tanino et al. (2005) Nucleic Acids Research 33 Database issue, D567-D572.