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A critical assessment of hidden markov model sub-optimal sampling strategies applied to the generation of peptide 3D models

Journal of computational chemistry, 2016-08, Vol.37 (21), p.2006-2016

2016

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Frog: a FRee Online druG 3D conformation generator

Nucleic acids research, 2007-07, Vol.35 (Web Server issue), p.W568

2007

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Exploring an alignment free approach for protein classification and structural class prediction

Biochimie, 2008-04, Vol.90 (4), p.615-625

2008

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A Hidden Markov Model Derived Structural Alphabet for Proteins

Journal of molecular biology, 2004-06, Vol.339 (3), p.591-605

2004

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Frog2: Efficient 3D conformation ensemble generator for small compounds

Nucleic acids research, 2010-07, Vol.38 (Web Server issue), p.W622

2010

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SCit: web tools for protein side chain conformation analysis

Nucleic acids research, 2004-07, Vol.32 (Web Server issue), p.W508

2004

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A coarse-grained protein force field for folding and structure prediction

Proteins, structure, function, and bioinformatics, 2007-11, Vol.69 (2), p.394-408

2007

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Hidden Markov Model-derived structural alphabet for proteins: The learning of protein local shapes captures sequence specificity

Biochimica et biophysica acta, 2005-08, Vol.1724 (3), p.394-403

2005

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CS-PSeq-Gen: Simulating the evolution of protein sequence under constraints

Bioinformatics, 2002-07, Vol.18 (7), p.1015-1016

TUFFERY, P

2002

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Predicting the disulfide bonding state of cysteines using protein descriptors

Proteins, structure, function, and bioinformatics, 2002-02, Vol.46 (3), p.243-249

2002

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A Hidden Markov Model applied to the protein 3D structure analysis

Computational statistics & data analysis, 2008-02, Vol.52 (6), p.3198-3207

2008

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RPBS: a web resource for structural bioinformatics

Nucleic acids research, 2005-07, Vol.33 (Web Server issue), p.W44

2005

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Critical assessment of side-chain conformational space sampling procedures designed for quantifying the effect of side-chain environment

Journal of computational chemistry, 2003-11, Vol.24 (15), p.1950-1961

2003

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SABBAC: online Structural Alphabet-based protein BackBone reconstruction from Alpha-Carbon trace

Nucleic acids research, 2006-07, Vol.34 (Web Server issue), p.W147

2006

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Prediction of protein side chain conformations: a study on the influence of backbone accuracy on conformation stability in the rotamer space

Protein engineering, 1997-04, Vol.10 (4), p.361-372

1997

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Exploring a hybrid space minimization procedure

Theoretical chemistry accounts, 2001-06, Vol.106 (1-2), p.152-157

Tufféry, P.

2001

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PredAcc : prediction of solvent accessibility

Bioinformatics (Oxford, England), 1999-02, Vol.15 (2), p.176-177

1999

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PEP-FOLD: an updated de novo structure prediction server for both linear and disulfide bonded cyclic peptides

Nucleic acids research, 2012-07, Vol.40 (Web Server issue), p.W288

2012

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PCE: web tools to compute protein continuum electrostatics

Nucleic acids research, 2005-07, Vol.33 (Web Server issue), p.W372

2005

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wwLigCSRre: a 3D ligand-based server for hit identification and optimization

Nucleic acids research, 2009-07, Vol.37 (Web Server issue), p.W504

2009

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fpocket: online tools for protein ensemble pocket detection and tracking

Nucleic acids research, 2010-07, Vol.38 (Web Server issue), p.W582

2010

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PEP-FOLD: an online resource for de novo peptide structure prediction

Nucleic acids research, 2009-07, Vol.37 (Web Server issue), p.W498

2009

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SA-Search: a web tool for protein structure mining based on a Structural Alphabet

Nucleic acids research, 2004-07, Vol.32 (Web Server issue), p.W545

2004

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Peptide-Based Strategies Against SARS-CoV-2 Attack: An Updated In Silico Perspective

Frontiers in drug discovery, 2022-05, Vol.2

2022

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Hidden Markov Model-derived structural alphabet for proteins: The learning of protein local shapes captures sequence specificity

Biochimica et biophysica acta. General subjects, 2005-08, Vol.1724 (3), p.394-403

2005

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A critical assessment of hidden markov model sub-optimal sampling strategies applied to the generation of peptide 3D models

Frog: a FRee Online druG 3D conformation generator

Exploring an alignment free approach for protein classification and structural class prediction

A Hidden Markov Model Derived Structural Alphabet for Proteins

Frog2: Efficient 3D conformation ensemble generator for small compounds

SCit: web tools for protein side chain conformation analysis

A coarse-grained protein force field for folding and structure prediction

Hidden Markov Model-derived structural alphabet for proteins: The learning of protein local shapes captures sequence specificity

CS-PSeq-Gen: Simulating the evolution of protein sequence under constraints

Predicting the disulfide bonding state of cysteines using protein descriptors

A Hidden Markov Model applied to the protein 3D structure analysis

RPBS: a web resource for structural bioinformatics

Critical assessment of side-chain conformational space sampling procedures designed for quantifying the effect of side-chain environment

SABBAC: online Structural Alphabet-based protein BackBone reconstruction from Alpha-Carbon trace

Prediction of protein side chain conformations: a study on the influence of backbone accuracy on conformation stability in the rotamer space

Exploring a hybrid space minimization procedure

PredAcc : prediction of solvent accessibility

PEP-FOLD: an updated de novo structure prediction server for both linear and disulfide bonded cyclic peptides

PCE: web tools to compute protein continuum electrostatics

wwLigCSRre: a 3D ligand-based server for hit identification and optimization

fpocket: online tools for protein ensemble pocket detection and tracking

PEP-FOLD: an online resource for de novo peptide structure prediction

SA-Search: a web tool for protein structure mining based on a Structural Alphabet

Peptide-Based Strategies Against SARS-CoV-2 Attack: An Updated In Silico Perspective

Hidden Markov Model-derived structural alphabet for proteins: The learning of protein local shapes captures sequence specificity

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