title: PredHSP: Sequence Based Proteome-Wide Heat Shock Protein Prediction and Classification Tool to Unlock the Stress Biology.
abstract: Heat shock proteins are chaperonic proteins, which are present in every domain of life. They play a crucial role in folding/unfolding of proteins, their sorting and assembly into multi-protein complex, cell cycle control and also protect the cell during stress. Considering the fact that no web-based predictor is available for simultaneous prediction and classification of HSPs, it is imperative to develop a method, which can predict and classify them efficiently. In this study, we have developed coupled amino acid composition and support vector machine based two-tier method, PredHSP that identifies heat shock proteins (1st tier) and classifies it to different families (at 2nd tier). At 1st tier, we achieved maximum accuracy 76.66% with MCC 0.43, while at 2nd tier we achieved maximum accuracy 96.36% with MCC 0.87 for HSP20, 91.91% with MCC 0.83 for HSP40, 95.96% with MCC 0.72 for HSP60, 91.87% with MCC 0.71 for HSP70, 98.43% with MCC 0.70 for HSP90 and 97.48% with MCC 0.71 for HSP100. We have also developed a webserver, as well as standalone package for the use of scientific community, which can be accessed at http://14.139.227.92/mkumar/predhsp/index.html.
authors.affiliation: Department of Biophysics, University of Delhi South Campus, New Delhi, India.
authors.forename: Ravindra
authors.initials: R
authors.lastname: Kumar
authors.affiliation: Department of Biophysics, University of Delhi South Campus, New Delhi, India.
authors.forename: Bandana
authors.initials: B
authors.lastname: Kumari
authors.affiliation: Department of Biophysics, University of Delhi South Campus, New Delhi, India.
authors.forename: Manish
authors.identifier: 0000-0002-7936-9892
authors.initials: M
authors.lastname: Kumar
mesh_terms: D000465:Algorithms; D002453:Cell Cycle; D006360:Heat-Shock Proteins / Q000378:metabolism*; D006801:Humans; D020407:Internet; D046912:Multiprotein Complexes / Q000378:metabolism; D011237:Predictive Value of Tests; D020543:Proteome; D040901:Proteomics / Q000379:methods*; D015203:Reproducibility of Results; D012680:Sensitivity and Specificity; D060388:Support Vector Machine
chemical_list: D006360:Heat-Shock Proteins; D046912:Multiprotein Complexes; D020543:Proteome