title: Multi-instance multilabel learning with weak-label for predicting protein function in electricigens.
abstract: Nature often brings several domains together to form multidomain and multifunctional proteins with a vast number of possibilities. In our previous study, we disclosed that the protein function prediction problem is naturally and inherently Multi-Instance Multilabel (MIML) learning tasks. Automated protein function prediction is typically implemented under the assumption that the functions of labeled proteins are complete; that is, there are no missing labels. In contrast, in practice just a subset of the functions of a protein are known, and whether this protein has other functions is unknown. It is evident that protein function prediction tasks suffer from weak-label problem; thus protein function prediction with incomplete annotation matches well with the MIML with weak-label learning framework. In this paper, we have applied the state-of-the-art MIML with weak-label learning algorithm MIMLwel for predicting protein functions in two typical real-world electricigens organisms which have been widely used in microbial fuel cells (MFCs) researches. Our experimental results validate the effectiveness of MIMLwel algorithm in predicting protein functions with incomplete annotation.
authors.affiliation: School of Geographic and Biological Information, Nanjing University of Posts and Telecommunications, Nanjing 210046, China.
authors.forename: Jian-Sheng
authors.initials: JS
authors.lastname: Wu
authors.affiliation: School of Telecommunication and Information Engineering, Nanjing University of Posts and Telecommunications, Nanjing 210046, China.
authors.forename: Hai-Feng
authors.initials: HF
authors.lastname: Hu
authors.affiliation: School of Geographic and Biological Information, Nanjing University of Posts and Telecommunications, Nanjing 210046, China.
authors.forename: Shan-Cheng
authors.initials: SC
authors.lastname: Yan
authors.affiliation: School of Geographic and Biological Information, Nanjing University of Posts and Telecommunications, Nanjing 210046, China.
authors.forename: Li-Hua
authors.initials: LH
authors.lastname: Tang
mesh_terms: D001426:Bacterial Proteins / Q000378:metabolism*; D001674:Bioelectric Energy Sources / Q000382:microbiology*; D045302:Geobacter / Q000378:metabolism*; D020592:Shewanella / Q000378:metabolism*
chemical_list: D001426:Bacterial Proteins