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H-InvDB
| Name | H-InvDB |
|---|---|
| Aliases | H-Invitational database |
| Description | H-Invitational Database (H-InvDB) is 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, protein functions, etc. |
| Type | DB |
| Main Institutes of management | Molecular Profiling Research Center for Drug Discovery (molprof), National Institute of Advanced Industrial Science and Technology (AIST) |
| Country of the Institute | Japan |
| URL of the site | http://www.h-invitational.jp/hinv/ahg-db/index.jsp |
| Interface | GUI | FTP | SOAP web service | REST web service |
| Input example | Enter the keyword "protein" in the text box on the upper right of the top page and click "GO" button. |
| Keyword | cDNA | annotation | integration |
| Amount of the all data for download（Mbyte） | Method to obtain the all data. | 2628.656|Download from the following sites FTP:ftp://ftp.ddbj.nig.ac.jp/mirror_database/hinv/ or HTTP:http://www.h-invitational.jp/hinv/dataset/download_jp.cgi |
| External resources (databases) in building the product. | CHGC | DKFZ/MIPS | IMSUT | KDRI | MGC/NCI | BIND | BodyMap | CCDS | dbSNP | DDBJ/EMBL/GenBank | DIP | Ensembl | EntrezGene | fRNAdb | GenAtlas | Gene ontology (GO) | GeneCards | GGDB | GTOP | HGNC | H-GOLD (GDBS) | HPRD | IntAct | InterPro | KEGG | LIFEdb | LSBM | MGI | MINT | Mutation view | NC-IUBMB (EC) | OMIM | PubMed | RefSeq | UCSC | UniGene | UniProt |
| Data type | RNA human full-length cDNA, mRNA |
| Biological species in the main concern | Homo sapiens [Taxonomy_id: 9606, human] |
| Conditions of use | Attribution&Share AlikeUser account is not required. |
| Frequency of updates (in last two years) | 6 |
| Last date of updates (date of confirmation) | 2015/06/23 (2019/07/04) |
| Main IDs used in the products | H-Inv cluster ID (HIX) | H-Inv transcript ID (HIT) | H-Inv protein ID (HIP) | H-Inv family ID (HIF) |
| How to make a link to get access to each IDs. | http://www.h-invitational.jp/hinv/spsoup/locus_view?hix_id=[HIX] |
| external databases to which this database/tool have links | CHGC (http://www.chgc.sh.cn/en/) | DKFZ/MIPS (http://www.dkfz.de/) | IMSUT (http://www.ims.u-tokyo.ac.jp/imsut/en/) | KDRI (http://www.kazusa.or.jp/e/) | MGC/NCI (http://mgc.nci.nih.gov/) | BIND (http://bond.unleashedinformatics.com/) | BodyMap (http://bodymap.ims.u-tokyo.ac.jp/) | CCDS (http://www.ncbi.nlm.nih.gov/CCDS/CcdsBrowse.cgi?REQUEST=CCDS&DATA=CCDS4091) | dbSNP (http://www.ncbi.nlm.nih.gov/SNP/snp_ref.cgi?searchType=adhoc_search&type=rs&rs=rs35752268) | DDBJ (http://getentry.ddbj.nig.ac.jp/search/get_entry?accnumber=BC053657) | DIP (http://dip.doe-mbi.ucla.edu) | Ensembl (http://uswest.ensembl.org/Homo_sapiens/Transcript/Summary?g=ENSG00000113532;r=5:100145357-100238970;t=ENST00000231461) | EntrezGene (http://www.ncbi.nlm.nih.gov/sites/entrez?db=gene&cmd=Retrieve&dopt=Graphics&list_uids=7903) | fRNAdb (http://togodb.biosciencedbc.jp/togodb/view/frnadb_summary) | GenAtlas | Gene ontology (GO) (http://www.ebi.ac.uk/QuickGO/GTerm?id=GO:0008373) | GeneCards (http://www.genecards.org/cgi-bin/carddisp.pl?gene=ST8SIA4) | GGDB (http://riodb.ibase.aist.go.jp/rcmg/ggdb/Homolog?cat=symbol&symbol=ST8SIA4) | GTOP (http://sybock.genes.nig.ac.jp/~hinv7/cgi-bin/mas.pl.cgi?org=hinv7&id=HIT000044689) | HGNC (http://www.genenames.org/data/hgnc_data.php?match=ST8SIA4) | H-GOLD (GDBS) (http://hinv.jp/gdbs/viewer/Viewer?ch=5&fr=100145359&to=100238970&gv=new&md=1) | HGPD (http://riodb.ibase.aist.go.jp/hgpd/cgi-bin/pg_locus_list.cgi?txt_srch_cdna_name=FLJ82330) | HPRD (http://www.hprd.org/) | IntAct (http://www.ebi.ac.uk/intact/main.xhtml) | InterPro (http://www.ebi.ac.uk/interpro/IEntry?ac=IPR012163) | KEGG (http://www.genome.jp/dbget-bin/www_bget?hsa+7903) | LIFEdb (http://www.lifedb.de/lifedb/) | MGI (http://www.informatics.jax.org/searchtool/Search.do?query=mgi:106018) | MINT (http://mint.bio.uniroma2.it/mint/Welcome.do) | Mutation view (http://mutview.dmb.med.keio.ac.jp/MutationView/jsp/mutview/java/geneWin.jsp?omimId=) | NC-IUBMB (EC) | OMIM (http://omim.org/entry/601888) | PubMed (http://www.ncbi.nlm.nih.gov/pubmed/7624364?dopt=Abstract) | RefSeq (http://www.ncbi.nlm.nih.gov/nucleotide/NM_175052) | UCSC (http://genome.ucsc.edu/cgi-bin/hgTracks?org=Human&position=chr5:100142639-100238987&db=) | UniGene (http://www.ncbi.nlm.nih.gov/sites/entrez?db=unigene) | UniProt (http://www.uniprot.org/uniprot/Q92187) |
| Published papers (PubMed IDs) | pmid:23245335 | pmid:23197657 | pmid:19933760 | pmid:18089548 | pmid:15103394 |
| Operational Status | available |
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