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ACPYPE - AnteChamber PYthon Parser interfacE

BMC research notes, 2012-07, Vol.5 (1), p.367-367, Article 367

2012

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Determination of Secondary Structure Populations in Disordered States of Proteins Using Nuclear Magnetic Resonance Chemical Shifts

Biochemistry (Easton), 2012-03, Vol.51 (11), p.2224-2231

2012

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Auto-encoding NMR chemical shifts from their native vector space to a residue-level biophysical index

Nature communications, 2019-06, Vol.10 (1), p.2511-2511, Article 2511

2019

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MobiDB 3.0: more annotations for intrinsic disorder, conformational diversity and interactions in proteins

Nucleic acids research, 2018-01, Vol.46 (D1), p.D471

2018

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Deciphering the RRM-RNA recognition code: A computational analysis

PLoS computational biology, 2023-01, Vol.19 (1), p.e1010859-e1010859

2023

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Early Folding Events, Local Interactions, and Conservation of Protein Backbone Rigidity

Biophysical journal, 2016-02, Vol.110 (3), p.572-583

2016

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Recommendations of the wwPDB NMR Validation Task Force

Structure (London), 2013-09, Vol.21 (9), p.1563-1570

2013

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Exploring the Sequence-based Prediction of Folding Initiation Sites in Proteins

Scientific reports, 2017-08, Vol.7 (1), p.8826-11, Article 8826

2017

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The CCPN data model for NMR spectroscopy: Development of a software pipeline

Proteins, structure, function, and bioinformatics, 2005-06, Vol.59 (4), p.687-696

2005

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NMR structure validation in relation to dynamics and structure determination

Progress in nuclear magnetic resonance spectroscopy, 2014-10, Vol.82, p.27-38

Vranken, Wim F

2014

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An Evolutionary View on Disulfide Bond Connectivities Prediction Using Phylogenetic Trees and a Simple Cysteine Mutation Model

PloS one, 2015-07, Vol.10 (7), p.e0131792-e0131792

2015

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Challenges in describing the conformation and dynamics of proteins with ambiguous behavior

Frontiers in molecular biosciences, 2022-08, Vol.9, p.959956-959956

2022

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Structure-based prediction of methyl chemical shifts in proteins

Journal of biomolecular NMR, 2011-08, Vol.50 (4), p.331-346

2011

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Repurposing the mammalian RNA-binding protein Musashi-1 as an allosteric translation repressor in bacteria

eLife, 2024-02, Vol.12

2024

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Small-Angle X-Ray Scattering- and Nuclear Magnetic Resonance-Derived Conformational Ensemble of the Highly Flexible Antitoxin PaaA2

Structure (London), 2014-06, Vol.22 (6), p.854-865

2014

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NMR Exchange Format: a unified and open standard for representation of NMR restraint data

Nature structural & molecular biology, 2015-06, Vol.22 (6), p.433

2015

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The DynaMine webserver: predicting protein dynamics from sequence

Nucleic acids research, 2014-07, Vol.42 (Web Server issue), p.W264

2014

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From protein sequence to dynamics and disorder with DynaMine

Nature communications, 2013-11, Vol.4 (1), p.2741-2741, Article 2741

2013

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MobiDB: intrinsically disordered proteins in 2021

Nucleic acids research, 2021-01, Vol.49 (D1), p.D361

2021

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Computational identification of prion-like RNA-binding proteins that form liquid phase-separated condensates

Bioinformatics, 2019-11, Vol.35 (22), p.4617-4623

2019

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AmyPro: a database of proteins with validated amyloidogenic regions

Nucleic acids research, 2018-01, Vol.46 (D1), p.D387

2018

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Panoramic Perspective on Human Phosphosites

Journal of proteome research, 2022-08, Vol.21 (8), p.1894-1915

2022

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RINspector: a Cytoscape app for centrality analyses and DynaMine flexibility prediction

Bioinformatics, 2018-01, Vol.34 (2), p.294-296

2018

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New simulation insights on the structural transition mechanism of bovine rhodopsin activation

Proteins, structure, function, and bioinformatics, 2023-06, Vol.91 (6), p.771-780

2023

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Exploring the limitations of biophysical propensity scales coupled with machine learning for protein sequence analysis

Scientific reports, 2019-11, Vol.9 (1), p.16932-11, Article 16932

2019

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ACPYPE - AnteChamber PYthon Parser interfacE

Determination of Secondary Structure Populations in Disordered States of Proteins Using Nuclear Magnetic Resonance Chemical Shifts

Auto-encoding NMR chemical shifts from their native vector space to a residue-level biophysical index

MobiDB 3.0: more annotations for intrinsic disorder, conformational diversity and interactions in proteins

Deciphering the RRM-RNA recognition code: A computational analysis

Early Folding Events, Local Interactions, and Conservation of Protein Backbone Rigidity

Recommendations of the wwPDB NMR Validation Task Force

Exploring the Sequence-based Prediction of Folding Initiation Sites in Proteins

The CCPN data model for NMR spectroscopy: Development of a software pipeline

NMR structure validation in relation to dynamics and structure determination

An Evolutionary View on Disulfide Bond Connectivities Prediction Using Phylogenetic Trees and a Simple Cysteine Mutation Model

Challenges in describing the conformation and dynamics of proteins with ambiguous behavior

Structure-based prediction of methyl chemical shifts in proteins

Repurposing the mammalian RNA-binding protein Musashi-1 as an allosteric translation repressor in bacteria

Small-Angle X-Ray Scattering- and Nuclear Magnetic Resonance-Derived Conformational Ensemble of the Highly Flexible Antitoxin PaaA2

NMR Exchange Format: a unified and open standard for representation of NMR restraint data

The DynaMine webserver: predicting protein dynamics from sequence

From protein sequence to dynamics and disorder with DynaMine

MobiDB: intrinsically disordered proteins in 2021

Computational identification of prion-like RNA-binding proteins that form liquid phase-separated condensates

AmyPro: a database of proteins with validated amyloidogenic regions

Panoramic Perspective on Human Phosphosites

RINspector: a Cytoscape app for centrality analyses and DynaMine flexibility prediction

New simulation insights on the structural transition mechanism of bovine rhodopsin activation

Exploring the limitations of biophysical propensity scales coupled with machine learning for protein sequence analysis

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