Work

cc SOL omics : a webserver for solubility prediction of endogenous and heterologous expression in Escherichia coli

Year: 2014

Type: article

Abstract: SUMMARY: Here we introduce ccSOL omics, a webserver for large-scale calculations of protein solubility. Our method allows (i) proteome-wide predictions; (ii) identification of soluble fragments within each sequences; (iii) exhaustive single-point mutation analysis. RESULTS: Using coil/disorder, hydrophobicity, hydrophilicity, β-sheet and α-helix propensities, we built a predictor of protein solubility. Our approach shows an accuracy of 79% on the training set (36 990 Target Track entries). Validation on three independent sets indicates that ccSOL omics discriminates soluble and insoluble proteins with an accuracy of 74% on 31 760 proteins sharing <30% sequence similarity. AVAILABILITY AND IMPLEMENTATION: ccSOL omics can be freely accessed on the web at http://s.tartaglialab.com/page/ccsol_group. Documentation and tutorial are available at http://s.tartaglialab.com/static_files/shared/tutorial_ccsol_omics.html. CONTACT: [email protected] SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Source: Bioinformatics

DOI: 10.1093/bioinformatics/btu420

Authors: Federico Agostini, Davide Cirillo, Carmen Maria Livi, Riccardo Delli Ponti, Gian Gaetano Tartaglia

Institutions: Universitat Pompeu Fabra, Centre for Genomic Regulation

Language: English

Topic: Machine Learning in Bioinformatics

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: hybrid

Estimated APC paid: $3,989

Funders: European Commission, Ministerio de Economía y Competitividad, FP7 Ideas: European Research Council