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Search FAANGMine. Enter names, identifiers or keywords for genes, proteins, ontology terms, authors, etc. (e.g. RCAN1, COX2, NM_001040473.2, NP_001076063.1, 282087, ENSFCAG00000031270, rs385910977, IL13)

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FAANGMine v1.2 (release updates) integrates reference genome assemblies of bovine, goat, horse, pig, sheep, chicken, cat, dog and water buffalo with many other biological data sets. See the Data Source page for assembly versions. Model organism data (human, mouse, rat) allow well-curated data sets to be applied using orthology.

Please contact us if you would like any additional template queries or if you have a concern about a query not completing.

Gene expression values (FPKM and TPM) were computed using RNAseq from gene atlas expression datasets. The Data Source page lists expression datasets available for each species.

Query for expression:

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This template category is for data and metadata generated by the Functional Annotation of Animal Genomes (FAANG) Consortium. FAANG data currently includes RNA-seq based gene expression levels for several species (under the Expression tab) and equine histone modification marks. The sequence ontology term used for histone modification marks in FAANGMine is "histone_binding_site".

Query for faang:

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Variation data includes variant and variant effects from Ensembl (all species except water buffalo) and QTL from AnimalQTLdb (bovine, pig, sheep, chicken). Primary identifiers for SNP are rs IDs. Identifiers from SNP arrays are available as alias identifiers. You can convert alias IDs to rs IDs using a query template.

Query for variation:

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These template queries enable the retrieval of database cross references (DBxref) and aliases. DBxref are provided for gene ids across different gene sets (RefSeq and Ensembl). Aliases are provided for SNP ids.

Query for alias and dbxref:

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