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Most Ensembl Genomes data is stored in MySQL relational databases and can be accessed by the Ensembl REST interface, the Perl API, Biomart or online. [5] Ensembl Genomes is an open project, and most of the code, tools, and data are available to the public. [6] Ensembl and Ensembl Genomes software uses an Apache 2.0 license [7] license.
In the Ensembl project, sequence data are fed into the gene annotation system (a collection of software "pipelines" written in Perl) which creates a set of predicted gene locations and saves them in a MySQL database for subsequent analysis and display. Ensembl makes these data freely accessible to the world research community.
The HUGO Gene Nomenclature Committee is responsible for providing human gene naming guidelines and approving new, unique human gene names and symbols (short identifiers typically created by abbreviating). All human gene names and symbols can be searched online at the HGNC [13] website, and the guidelines for their formation are available there ...
The background indicates the symbol sources: HGNC Approved Genes, EntrezGene Database, Ensembl Gene Database, or GeneCards Generated Genes. Aliases: Aliases, as its name indicates, shows synonyms and aliases of the gene according to diverse sources such as HGNC. The right column displays how the aliases associated with the resources and gives ...
Gene Annotator: The Gene Annotator or GA tool takes as input a list of gene symbols, RGD IDs, GenBank accession numbers, Ensembl identifiers, or a chromosomal region and retrieves gene orthologs, external database identifiers and ontology annotations for the corresponding genes in RGD. The data can be downloaded into an Excel spreadsheet or ...
An example Gene Ontology (GO) ancestor chart organized as a directed acyclic graph taken from QuickGO. [39] It shows the molecular functions, biological processes, and cellular components in which the matrilin complex , a component of the extracellular matrix , is involved.
3663 27056 Ensembl ENSG00000128604 ENSMUSG00000029771 UniProt Q13568 P56477 RefSeq (mRNA) NM_001098627 NM_001098629 NM_001098630 NM_001242452 NM_032643 NM_001347928 NM_001364314 NM_001252382 NM_012057 NM_001311083 RefSeq (protein) NP_001092097 NP_001092099 NP_001092100 NP_001229381 NP_116032 NP_001334857 NP_001351243 NP_001092099.1 NP_001239311 NP_001298012 NP_036187 Location (UCSC) Chr 7: 128 ...
Probable cation-transporting ATPase 13A2 is an enzyme that in humans is encoded by the ATP13A2 gene that is involved in the transport of divalent transition metal cations. [5] [6] [7] It appears to protect cells from manganese [8] and zinc toxicity, [9] possibly by causing cellular efflux and/or lysosomal sequestration; and from iron toxicity, possibly by preserving lysosome integrity against ...