Annotation of Alternatively Spliced Proteins and Transcripts with Protein-Folding Algorithms and Isoform-Level Functional Networks.
Tens of thousands of splice isoforms of proteins have been catalogued as predicted sequences from transcripts in humans and other species. Relatively few have been characterized biochemically or structurally. With the extensive development of protein bioinformatics, the characterization and modeling of isoform features, isoform functions, and isoform-level networks have advanced notably. Here we present applications of the I-TASSER family of algorithms for folding and functional predictions and the IsoFunc, MIsoMine, and Hisonet data resources for isoform-level analyses of network and pathway-based functional predictions and protein-protein interactions. Hopefully, predictions and insights from protein bioinformatics will stimulate many experimental validation studies.
Institute for Systems Biology, Seattle, WA, 98109, USA.
Hongdong
H
Li
Department of Computational Medicine & Bioinformatics, University of Michigan, Ann Arbor, MI, USA.|Department of Biological Chemistry, University of Michigan, Ann Arbor, MI, USA.
Yang
Y
Zhang
Department of Computational Medicine & Bioinformatics, University of Michigan, Ann Arbor, MI, USA.|Department of Internal Medicine, University of Michigan, Ann Arbor, MI, USA.
Yuanfang
Y
Guan
Department of Computational Medicine & Bioinformatics, University of Michigan, Ann Arbor, MI, USA.
Rajasree
R
Menon
Department of Computational Medicine & Bioinformatics, University of Michigan, Ann Arbor, MI, USA.|Department of Internal Medicine, University of Michigan, Ann Arbor, MI, USA.|Department of Human Genetics, University of Michigan, Ann Arbor, MI, USA.|School of Public Health, University of Michigan, Ann Arbor, MI, 48109, USA.
Gilbert S
GS
Omenn
D000465:Algorithms; D017398:Alternative Splicing; D000818:Animals; D019295:Computational Biology / Q000379:methods*; D055106:Genome-Wide Association Study / Q000379:methods; D006801:Humans; D051379:Mice; D008958:Models, Molecular; D058977:Molecular Sequence Annotation; D011487:Protein Conformation; D017510:Protein Folding; D020033:Protein Isoforms; D011506:Proteins / Q000737:chemistry* / Q000235:genetics* / Q000378:metabolism; D021281:Quantitative Structure-Activity Relationship; D012984:Software; D064878:Web Browser; D057188:Workflow
D020033:Protein Isoforms; D011506:Proteins
Functional prediction; Isoform network; Protein folding; Splice isoforms