title: OAHG: an integrated resource for annotating human genes with multi-level ontologies.
abstract: OAHG, an integrated resource, aims to establish a comprehensive functional annotation resource for human protein-coding genes (PCGs), miRNAs, and lncRNAs by multi-level ontologies involving Gene Ontology (GO), Disease Ontology (DO), and Human Phenotype Ontology (HPO). Many previous studies have focused on inferring putative properties and biological functions of PCGs and non-coding RNA genes from different perspectives. During the past several decades, a few of databases have been designed to annotate the functions of PCGs, miRNAs, and lncRNAs, respectively. A part of functional descriptions in these databases were mapped to standardize terminologies, such as GO, which could be helpful to do further analysis. Despite these developments, there is no comprehensive resource recording the function of these three important types of genes. The current version of OAHG, release 1.0 (Jun 2016), integrates three ontologies involving GO, DO, and HPO, six gene functional databases and two interaction databases. Currently, OAHG contains 1,434,694 entries involving 16,929 PCGs, 637 miRNAs, 193 lncRNAs, and 24,894 terms of ontologies. During the performance evaluation, OAHG shows the consistencies with existing gene interactions and the structure of ontology. For example, terms with more similar structure could be associated with more associated genes (Pearson correlation γ2= 0.2428, p < 2.2e-16).
authors.affiliation: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, P. R. China.
authors.forename: Liang
authors.initials: L
authors.lastname: Cheng
authors.affiliation: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, P. R. China.
authors.forename: Jie
authors.initials: J
authors.lastname: Sun
authors.affiliation: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, P. R. China.
authors.forename: Wanying
authors.initials: W
authors.lastname: Xu
authors.affiliation: School of Software, Harbin Institute of Technology, Harbin 150001, P. R. China.
authors.forename: Lixiang
authors.initials: L
authors.lastname: Dong
authors.affiliation: School of Life Science and Technology, Harbin Institute of Technology, Harbin 150001, P. R. China.
authors.forename: Yang
authors.initials: Y
authors.lastname: Hu
authors.affiliation: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin 150081, P. R. China.
authors.forename: Meng
authors.initials: M
authors.lastname: Zhou
mesh_terms: D000465:Algorithms; D019295:Computational Biology / Q000379:methods*; D030541:Databases, Genetic; D063990:Gene Ontology; D053263:Gene Regulatory Networks; D006801:Humans; D058977:Molecular Sequence Annotation / Q000379:methods*; D022661:RNA, Untranslated / Q000235:genetics; D014584:User-Computer Interface
chemical_list: D022661:RNA, Untranslated