Literature DB >> 18381401

FT-COMAR: fault tolerant three-dimensional structure reconstruction from protein contact maps.

Marco Vassura1, Luciano Margara, Pietro Di Lena, Filippo Medri, Piero Fariselli, Rita Casadio.   

Abstract

UNLABELLED: Fault Tolerant Contact Map Reconstruction (FT-COMAR) is a heuristic algorithm for the reconstruction of the protein three-dimensional structure from (possibly) incomplete (i.e. containing unknown entries) and noisy contact maps. FT-COMAR runs within minutes, allowing its application to a large-scale number of predictions. AVAILABILITY: http://bioinformatics.cs.unibo.it/FT-COMAR

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Year:  2008        PMID： 18381401     DOI： 10.1093/bioinformatics/btn115

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  26 in total

1.  BCov: a method for predicting β-sheet topology using sparse inverse covariance estimation and integer programming.

Authors:  Castrense Savojardo; Piero Fariselli; Pier Luigi Martelli; Rita Casadio
Journal:  Bioinformatics       Date:  2013-09-23       Impact factor: 6.937

2.  Assessing Predicted Contacts for Building Protein Three-Dimensional Models.

Authors:  Badri Adhikari; Debswapna Bhattacharya; Renzhi Cao; Jianlin Cheng
Journal:  Methods Mol Biol       Date:  2017

3.  CONFOLD: Residue-residue contact-guided ab initio protein folding.

Authors:  Badri Adhikari; Debswapna Bhattacharya; Renzhi Cao; Jianlin Cheng
Journal:  Proteins       Date:  2015-06-06

4.  Evaluation of residue-residue contact predictions in CASP9.

Authors:  Bohdan Monastyrskyy; Krzysztof Fidelis; Anna Tramontano; Andriy Kryshtafovych
Journal:  Proteins       Date:  2011-09-17

5.  Protein contact prediction by integrating deep multiple sequence alignments, coevolution and machine learning.

Authors:  Badri Adhikari; Jie Hou; Jianlin Cheng
Journal:  Proteins       Date:  2017-10-31

6.  NNcon: improved protein contact map prediction using 2D-recursive neural networks.

Authors:  Allison N Tegge; Zheng Wang; Jesse Eickholt; Jianlin Cheng
Journal:  Nucleic Acids Res       Date:  2009-05-06       Impact factor: 16.971

7.  Defining an essence of structure determining residue contacts in proteins.

Authors:  R Sathyapriya; Jose M Duarte; Henning Stehr; Ioannis Filippis; Michael Lappe
Journal:  PLoS Comput Biol       Date:  2009-12-04       Impact factor: 4.475

8.  Evaluation of residue-residue contact prediction in CASP10.

Authors:  Bohdan Monastyrskyy; Daniel D'Andrea; Krzysztof Fidelis; Anna Tramontano; Andriy Kryshtafovych
Journal:  Proteins       Date:  2013-08-31

9.  Optimal contact definition for reconstruction of contact maps.

Authors:  Jose M Duarte; Rajagopal Sathyapriya; Henning Stehr; Ioannis Filippis; Michael Lappe
Journal:  BMC Bioinformatics       Date:  2010-05-27       Impact factor: 3.169

10.  Prediction of contact residue pairs based on co-substitution between sites in protein structures.

Authors:  Sanzo Miyazawa
Journal:  PLoS One       Date:  2013-01-16       Impact factor: 3.240
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