GAIL (Gene-Gene Association Inference based on biomedical Literature) is a web interface and database that allows the investigation of human gene-gene networks based on shared gene-GO cooccurences in PubMed articles. To get more information on the database, please visit the Documentation. To see how the output of GAIL can be analyzed (BayesGO), please visit the software page.
GAIL uses a graph database to store its data as nodes and edges. Given terms as input, GAIL attempts to match these terms to Synonym nodes, which are related to actual Gene/GO nodes. It is advised to first map the terms to a unique symbol. This can be done using the ID mapper.
The gene query allows user to search a list of interested genes using HUGO Gene Nomenclature Committee (HGNC) official symbol, and get all associated GO terms from our biomedical literature database. A p-value based on hypergeometric test is also given, where a smaller p-value indicates a high correlation between the gene and the GO term. A external link to GeneCard on the page allow user to get more detailed info about the gene.
Similarly, the GO query allows user to search a list of interested GO terms using GO IDs, and get all associated genes from our database, with a hypergeometric test p-value indicating the strength of correlation.
The network query currently provides service for user to query a Gene-GO network for a given list of gene (using HGNC official symbols) and GO terms (using GO term IDs).
The gene query and network query require to use official HGNC ID. We provide a simple ID mapper function to map a list of gene names/synonyms to possible official HGNC IDs. A matched list of HGNC IDs will be returned.