| Applying Undertaker to quality assessment. | |
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MedLine Citation:
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PMID: 19639637 Owner: NLM Status: MEDLINE |
Abstract/OtherAbstract:
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Our group tested three quality assessment functions in CASP8: a function which used only distance constraints derived from alignments (SAM-T08-MQAO), a function which added other single-model terms to the distance constraints (SAM-T08-MQAU), and a function which used both single-model and consensus terms (SAM-T08-MQAC). We analyzed the functions both for ranking models for a single target and for producing an accurate estimate of GDT_TS. Our functions were optimized for the ranking problem, so are perhaps more appropriate for metaserver applications than for providing trustworthiness estimates for single models. On the CASP8 test, the functions with more terms performed better. The MQAC consensus method was substantially better than either single-model function, and the MQAU function was substantially better than the MQAO function that used only constraints from alignments. |
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Authors:
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John G Archie; Martin Paluszewski; Kevin Karplus |
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Publication Detail:
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Type: Comparative Study; Evaluation Studies; Journal Article; Research Support, N.I.H., Extramural |
Journal Detail:
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Title: Proteins Volume: 77 Suppl 9 ISSN: 1097-0134 ISO Abbreviation: Proteins Publication Date: 2009 |
Date Detail:
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Created Date: 2009-10-29 Completed Date: 2010-01-19 Revised Date: 2010-09-27 |
Medline Journal Info:
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Nlm Unique ID: 8700181 Medline TA: Proteins Country: United States |
Other Details:
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Languages: eng Pagination: 191-5 Citation Subset: IM |
Copyright Information:
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Copyright 2009 Wiley-Liss, Inc. |
Affiliation:
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Department of Biomolecular Engineering, University of California, Santa Cruz, California 95064, USA. |
Export Citation:
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APA/MLA Format Download EndNote Download BibTex |
| MeSH Terms | |
Descriptor/Qualifier:
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Computational Biology
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methods* Models, Molecular Protein Conformation Proteins / chemistry* Sequence Alignment / methods* Sequence Analysis, Protein / methods* Software |
| Grant Support | |
ID/Acronym/Agency:
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R01 GM068570/GM/NIGMS NIH HHS; R01 GM068570-05/GM/NIGMS NIH HHS; T32 GM070386/GM/NIGMS NIH HHS |
| Chemical | |
Reg. No./Substance:
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0/Proteins |
| Comments/Corrections | |
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
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