The Animal QTLdb Release
Dec 23, 2020


Release 43

(Dec 23, 2020): A sum of 2,123 new QTL/associations have been curated into the database. (New additions less obsolete/retracted ones: Catfish: 0; Cattle: 815; Chicken: 275; Goat: 0; Horse: 21; Pig: 584; Sheep: 151; Rainbow trout: 277 -- Net increase: 2,123). The current total number of QTL in the database: 211,792 [Breakdown by species -- Cattle: 160,659; Chicken: 12,783; Goat: 0; Horse: 2,472; Pig: 31,455; Sheep: 3,562; Rainbow trout: 861]
( This is a joint release with the 11th CorrDB release)

Database developments: (1) Goat QTLdb: The groundwork has been laid by preparing the goat linkage maps, genome maps, SNP map data, trait management space, and other required information in order to include goat as a new species for curation of published QTL and associations data into the database. (2) New dbxref data link services were added to both Animal QTLdb to allow external URL links to specific QTL data across species. Such links are often used by web services, API tools, or database xref pointers. The syntax to use the service is URL like[id] . (Replace "id" with respective actual id, which is the unique numerical identifier for a specific QTL. Refer to QTLdb API documentation or downloaded data about the ids). (3) Curated gene-eQTL data now can be delivered through web tools in the Animal QTLdb ("trait-eQTL" have already been delivered since 2009). The web links include lists by publication through permanent record locator, QTL/association data details, and a number of search results pages. It will be pushed to downloads soon. (4) A data curation helper tool has been developed to facilitate flanking SNPs lookup for given genome intervals. The tool picks the leftmost and the rightmost SNPs as flanking candidates for a searched span, along with their coordinates for curators to determine the use of the queried SNPs for data annotations. (5) Another data curation helper tool has been developed to look up SNP stable 'rs' numbers by their alternate names (usually from SNP discovery environment, original publications, and genotyping platforms). The tool allows copy/paste of a spreadsheet table for addition of a new column with the matched ‘rs’ numbers, thus greatly improving the efficiency and accuracy of data curation. (6) Frequently asked questions were updated with the addition of new items, updates to existing items, and corrections to several items. See "NEW" indicator on the page for details.

QTLdb Releases ( archive )
For most recent updates, please refer to What's New page on this site for related items.


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