Literature DB >> 12824314

META-PP: single interface to crucial prediction servers.

Volker A Eyrich1, Burkhard Rost.   

Abstract

The META-PP server (http://cubic.bioc.columbia.edu/meta/) simplifies access to a battery of public protein structure and function prediction servers by providing a common and stable web-based interface. The goal is to make these powerful and increasingly essential methods more readily available to nonexpert users and the bioinformatics community at large. At present META-PP provides access to a selected set of high-quality servers in the areas of comparative modelling, threading/fold recognition, secondary structure prediction and more specialized fields like contact and function prediction.

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Year:  2003        PMID: 12824314      PMCID: PMC168978          DOI: 10.1093/nar/gkg572

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  27 in total

1.  CAFASP-1: critical assessment of fully automated structure prediction methods.

Authors:  D Fischer; C Barret; K Bryson; A Elofsson; A Godzik; D Jones; K J Karplus; L A Kelley; R M MacCallum; K Pawowski; B Rost; L Rychlewski; M Sternberg
Journal:  Proteins       Date:  1999

2.  Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes.

Authors:  A Krogh; B Larsson; G von Heijne; E L Sonnhammer
Journal:  J Mol Biol       Date:  2001-01-19       Impact factor: 5.469

3.  Exploiting the past and the future in protein secondary structure prediction.

Authors:  P Baldi; S Brunak; P Frasconi; G Soda; G Pollastri
Journal:  Bioinformatics       Date:  1999-11       Impact factor: 6.937

4.  The PSIPRED protein structure prediction server.

Authors:  L J McGuffin; K Bryson; D T Jones
Journal:  Bioinformatics       Date:  2000-04       Impact factor: 6.937

5.  Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles.

Authors:  Gianluca Pollastri; Darisz Przybylski; Burkhard Rost; Pierre Baldi
Journal:  Proteins       Date:  2002-05-01

6.  EVA: large-scale analysis of secondary structure prediction.

Authors:  B Rost; V A Eyrich
Journal:  Proteins       Date:  2001

7.  Critical assessment of methods of protein structure prediction (CASP): round IV.

Authors:  J Moult; K Fidelis; A Zemla; T Hubbard
Journal:  Proteins       Date:  2001

8.  Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure.

Authors:  J Gough; K Karplus; R Hughey; C Chothia
Journal:  J Mol Biol       Date:  2001-11-02       Impact factor: 5.469

9.  Reliability of assessment of protein structure prediction methods.

Authors:  Marc A Marti-Renom; M S Madhusudhan; András Fiser; Burkhard Rost; Andrej Sali
Journal:  Structure       Date:  2002-03       Impact factor: 5.006

10.  EVA: continuous automatic evaluation of protein structure prediction servers.

Authors:  V A Eyrich; M A Martí-Renom; D Przybylski; M S Madhusudhan; A Fiser; F Pazos; A Valencia; A Sali; B Rost
Journal:  Bioinformatics       Date:  2001-12       Impact factor: 6.937

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  4 in total

1.  Chalcone isomerase family and fold: no longer unique to plants.

Authors:  Michael Gensheimer; Arcady Mushegian
Journal:  Protein Sci       Date:  2004-01-10       Impact factor: 6.725

2.  EVA: Evaluation of protein structure prediction servers.

Authors:  Ingrid Y Y Koh; Volker A Eyrich; Marc A Marti-Renom; Dariusz Przybylski; Mallur S Madhusudhan; Narayanan Eswar; Osvaldo Graña; Florencio Pazos; Alfonso Valencia; Andrej Sali; Burkhard Rost
Journal:  Nucleic Acids Res       Date:  2003-07-01       Impact factor: 16.971

3.  Improving the accuracy of protein secondary structure prediction using structural alignment.

Authors:  Scott Montgomerie; Shan Sundararaj; Warren J Gallin; David S Wishart
Journal:  BMC Bioinformatics       Date:  2006-06-14       Impact factor: 3.169

4.  Assessment of putative protein targets derived from the SARS genome.

Authors:  Lisa Yan; Mikhail Velikanov; Paul Flook; Wenjin Zheng; Sándor Szalma; Scott Kahn
Journal:  FEBS Lett       Date:  2003-11-20       Impact factor: 4.124

  4 in total

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