今更ながら、遺伝子のID変換が面倒だなと思っている人もいるのではないか
バッチ処理で様々なID変換してくれるwebツールで、カバーしているIDが最も多いと思われるサイトを見つけたので、メモがわりに残す。
以下のサイトはID変換以外にも様々なことができます。
bioDBnet (biological DataBase network)
遺伝子のID変換は、このうちの
db2db
を使います。
HPのタイトルページの内容を以下に引用しておきます。他の機能も試してください。
biological DataBase network is an application integrating a vast number of biological databases including Gene, UniProt, Ensembl, GO, Affy, RefSeq etc. The databases are created by downloading data from various public resources. They are formatted and maintained in a relational structure at the Advanced Biomedical Computing Center (ABCC).
In the current release of bioDBnet there are 210 distinct nodes and 754 edges. Details on the integration process, the network and version changes are available under the 'Documents' tab
Brief notes on what bioDBnet currently offers
db2db handles all the conversions from one database identifier to another.
dbWalk lets you walk through your own bioDBnet path.
dbReport reports every possible information that it can get for a particular identifier.
dbFind finds the type of identifiers and converts all into a chosen database identifier type
dbOrtho converts identifiers from one organism into homolog identifiers of a different organism
dbAnnot provides different types of annotations for various biological identifiers
dbOrg provides downloadable files of organism wide conversions
bioDBnet also offers supporting analysis tools to the main functions
orgTaxon for finding the taxon ID of an organism
goTree to look at the parents of any go accession
chrView for visualising data on chromosomes
bioTaxon for finding genes, proteins or GO accessions based on search terms