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Improved protein contact predictions with the MetaPSICOV2 server in CASP12

Buchan, DWA; Jones, DT; (2017) Improved protein contact predictions with the MetaPSICOV2 server in CASP12. Proteins: Structure, Function and Bioinformatics 10.1002/prot.25379. (In press). Green open access

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Abstract

In this paper we present the results for the MetaPSICOV2 contact prediction server in the CASP12 community experiment (http://predictioncenter.org). Over the 35 assessed Free Modelling target domains the MetaPSICOV2 server achieved a mean precision of 43.27%, a substantial increase relative to the server's performance in the CASP11 experiment (Kinch, Li et al. 2016). In the following paper, we discuss improvements to the MetaPSICOV2 server, covering both changes to the neural network and attempts to integrate contact predictions on a domain basis into the prediction pipeline. We also discuss some limitations in the CASP12 assessment which may have overestimated the performance of our method.

Type: Article
Title: Improved protein contact predictions with the MetaPSICOV2 server in CASP12
Location: United States
Open access status: An open access version is available from UCL Discovery
DOI: 10.1002/prot.25379
Publisher version: http://dx.doi.org/10.1002/prot.25379
Language: English
Additional information: Copyright © 2017 The Authors. This is an open access article under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
Keywords: contact prediction; machine learning; meta-prediction; bioinformatics
UCL classification: UCL > Provost and Vice Provost Offices
UCL > Provost and Vice Provost Offices > UCL BEAMS
UCL > Provost and Vice Provost Offices > UCL BEAMS > Faculty of Engineering Science
UCL > Provost and Vice Provost Offices > UCL BEAMS > Faculty of Engineering Science > Dept of Computer Science
URI: https://discovery.ucl.ac.uk/id/eprint/1574306
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