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  Protein sequence comparison and fold recognition: progress and good-practice benchmarking.

Söding, J., & Remmert, M. (2011). Protein sequence comparison and fold recognition: progress and good-practice benchmarking. Current Opinion in Structural Biology, 21(3), 404-411. doi:10.1016/j.sbi.2011.03.005.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0017-8C41-B Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0029-D7C8-9
Genre: Journal Article

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 Creators:
Söding, J.1, Author              
Remmert, M.2, Author
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1Research Group of Computational Biology, MPI for Biophysical Chemistry, Max Planck Society, ou_1933286              
2external, ou_persistent22              

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 Abstract: Protein sequence comparison methods have grown increasingly sensitive during the last decade and can often identify distantly related proteins sharing a common ancestor some 3 billion years ago. Although cellular function is not conserved so long, molecular functions and structures of protein domains often are. In combination with a domain-centered approach to function and structure prediction, modern remote homology detection methods have a great and largely underexploited potential for elucidating protein functions and evolution. Advances during the last few years include nonlinear scoring functions combining various sequence features, the use of sequence context information, and powerful new software packages. Since progress depends on realistically assessing new and existing methods and published benchmarks are often hard to compare, we propose 10 rules of good-practice benchmarking.

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Language(s): eng - English
 Dates: 2011-06
 Publication Status: Published in print
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 Table of Contents: -
 Rev. Method: Peer
 Identifiers: DOI: 10.1016/j.sbi.2011.03.005
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Title: Current Opinion in Structural Biology
Source Genre: Journal
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Publ. Info: London : Elsevier Current Trends
Pages: - Volume / Issue: 21 (3) Sequence Number: - Start / End Page: 404 - 411 Identifier: ISSN: 0959-440X
CoNE: https://pure.mpg.de/cone/journals/resource/954925578067