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G-compass
| Name | G-compass |
|---|---|
| Aliases | G-compass : Comparative genome browser |
| Description | G-compass was designed as a tool for the study of comparative genomics. It provides the data of evolutionarily conserved genomic regions and orthologous genes between human and 12 vertebrates (chimpanzee, rhesus monkey, mouse, rat, dog, cow, horse, opossum, chicken, zebrafish, medaka and Tetraodon). Information of ultraconserved elements (UCE) and copy number variable regions (CNV) are provided. Sliding window analysis and dot plot analysis are also implemented. |
| 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/g-compass/ |
| Interface | Search site |
| Input example | At upperside of Top/Search page, select "Keyword" from pull-down menu, input "calmodulin" in textbox and push "Search" button. |
| Keyword | Genome alignment | annotation |
| Amount of the all data for download（Mbyte） | Method to obtain the all data. | 7113.0|Download page from [Download] on the upperside of top page. |
| External resources (databases) in building the product. | H-InvDB | DDBJ | Ensembl | Refseq | UCSC |
| Data type | Comparative genomics |
| Biological species in the main concern | Homo sapiens | Bos taurus | Canis lupus familiaris | Bos taurus [Taxonomy_id: 9913, cattle] | Canis lupus familiaris [Taxonomy_id: 9615, dog] | Danio rerio [Taxonomy_id: 7955, zebrafish] | Equus caballus [Taxonomy_id: 9796, horse] | Gallus gallus [Taxonomy_id: 9031, chicken] | Homo sapiens [Taxonomy_id: 9606, human] | Macaca mulatta [Taxonomy_id: 9544, Rhesus monkey] | Monodelphis domestica [Taxonomy_id: 13616, gray short-tailed opossum] | Mus musculus [Taxonomy_id: 10090, house mouse] | Oryzias latipes [Taxonomy_id: 8090, Japanese medaka] | Pan troglodytes [Taxonomy_id: 9598, chimpanzee] | Rattus norvegicus [Taxonomy_id: 10116, Norway rat] | Tetraodon nigroviridis [Taxonomy_id: 99883, spotted green pufferfish] |
| Conditions of use | CC BY-SA 2.1 JP |
| Frequency of updates (in last two years) | 4 |
| Last date of updates (date of confirmation) | 2010/01/29 (2019/07/04) |
| Main IDs used in the products | H-Inv cluster ID (HIX) | H-Inv transcript ID (HIT) | Accession Number | HUGO gene symbol | InterPro ID |
| How to make a link to get access to each IDs. | Genome alignment | Annotation |
| external databases to which this database/tool have links | http://www.h-invitational.jp/g-compass/cgi-bin/gc_main.cgi?hit=[HIT ID]&species_1=[SPECIES1 (e.g. hg18)]&species_2=[SPECIES2(e.g. pt2)] |
| Published papers (PubMed IDs) | pmid:16169162 |
| Operational Status | available |
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