Cloud prediction of protein structure and function with PredictProtein for Debian.

TitleCloud prediction of protein structure and function with PredictProtein for Debian.
Publication TypeJournal Article
Year of Publication2013
AuthorsKaján, L, Yachdav, G, Vicedo, E, Steinegger, M, Mirdita, M, Angermüller, C, Böhm, A, Domke, S, Ertl, J, Mertes, C, Reisinger, E, Staniewski, C, Rost, B
JournalBiomed Res Int
Volume2013
Pagination398968
Date Published2013
ISSN2314-6141
Abstract

We report the release of PredictProtein for the Debian operating system and derivatives, such as Ubuntu, Bio-Linux, and Cloud BioLinux. The PredictProtein suite is available as a standard set of open source Debian packages. The release covers the most popular prediction methods from the Rost Lab, including methods for the prediction of secondary structure and solvent accessibility (profphd), nuclear localization signals (predictnls), and intrinsically disordered regions (norsnet). We also present two case studies that successfully utilize PredictProtein packages for high performance computing in the cloud: the first analyzes protein disorder for whole organisms, and the second analyzes the effect of all possible single sequence variants in protein coding regions of the human genome.

DOI10.1155/2013/398968
Alternate JournalBiomed Res Int
PubMed ID23971032
PubMed Central IDPMC3732596
Grant ListR01-LM07329 / LM / NLM NIH HHS / United States