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OpenSim: Simulating musculoskeletal dynamics and neuromuscular control to study human and animal movement

PLoS computational biology, 2018-07, Vol.14 (7), p.e1006223-e1006223

2018

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A deep learning model for predicting optimal distance range in crosslinking mass spectrometry data

Proteomics (Weinheim), 2023-09, Vol.23 (17), p.e2200341-n/a

2023

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Exploring the single-cell RNA-seq analysis landscape with the scRNA-tools database

PLoS computational biology, 2018-06, Vol.14 (6), p.e1006245-e1006245

2018

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Cytofkit: A Bioconductor Package for an Integrated Mass Cytometry Data Analysis Pipeline

PLoS computational biology, 2016-09, Vol.12 (9), p.e1005112-e1005112

2016

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The SARS-CoV-2 Exerts a Distinctive Strategy for Interacting with the ACE2 Human Receptor

Viruses, 2020-05, Vol.12 (5), p.497

2020

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Versatile and multivalent nanobodies efficiently neutralize SARS-CoV-2

Science (American Association for the Advancement of Science), 2020-12, Vol.370 (6523), p.1479-1484

2020

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The SKMT Algorithm: A method for assessing and comparing underlying protein entanglement

PLoS computational biology, 2023-11, Vol.19 (11), p.e1011248-e1011248

2023

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Integrative Structure Modeling: Overview and Assessment

Annual review of biochemistry, 2019-06, Vol.88, p.113

2019

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Accurate SAXS Profile Computation and its Assessment by Contrast Variation Experiments

Biophysical journal, 2013-08, Vol.105 (4), p.962-974

2013

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Dissecting peripheral protein-membrane interfaces

PLoS computational biology, 2022-12, Vol.18 (12), p.e1010346-e1010346

2022

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NanoNet: Rapid and accurate end-to-end nanobody modeling by deep learning

Frontiers in immunology, 2022-08, Vol.13, p.958584-958584

2022

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Comparative Clustering (CompaCt) of eukaryote complexomes identifies novel interactions and sheds light on protein complex evolution

PLoS computational biology, 2023-08, Vol.19 (8), p.e1011090-e1011090

2023

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Uncertainty in integrative structural modeling

Current opinion in structural biology, 2014-10, Vol.28, p.96-104

2014

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An integrated suite of fast docking algorithms

Proteins, structure, function, and bioinformatics, 2010-11, Vol.78 (15), p.3197-3204

2010

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De novo STXBP1 mutation in a child with developmental delay and spasticity reveals a major structural alteration in the interface with syntaxin 1A

American journal of medical genetics. Part B, Neuropsychiatric genetics, 2020-10, Vol.183 (7), p.412-422

2020

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BIPS—A code base for designing and coding of a Phage ImmunoPrecipitation Oligo Library

PLoS computational biology, 2022-11, Vol.18 (11), p.e1010663-e1010663

2022

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Putting the pieces together: integrative modeling platform software for structure determination of macromolecular assemblies

PLoS biology, 2012-01, Vol.10 (1), p.e1001244-e1001244

2012

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EmbryoMiner: A new framework for interactive knowledge discovery in large-scale cell tracking data of developing embryos

PLoS computational biology, 2018-04, Vol.14 (4), p.e1006128-e1006128

2018

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An open source tool for automatic spatiotemporal assessment of calcium transients and local 'signal-close-to-noise' activity in calcium imaging data

PLoS computational biology, 2018-03, Vol.14 (3), p.e1006054-e1006054

2018

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ModBase, a database of annotated comparative protein structure models and associated resources

Nucleic acids research, 2014-01, Vol.42 (Database issue), p.D336

2014

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fluEvidenceSynthesis: An R package for evidence synthesis based analysis of epidemiological outbreaks

PLoS computational biology, 2017-11, Vol.13 (11), p.e1005838-e1005838

2017

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Insights into HIV-1 proviral transcription from integrative structure and dynamics of the Tat:AFF4:P-TEFb:TAR complex

eLife, 2016-10, Vol.5

2016

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Integrative modelling of structure and dynamics of macromolecules based on SAXS profiles and cross-linking mass spectrometry

Acta crystallographica. Section A, Foundations and advances, 2021-08, Vol.77 (a2), p.C682-C682

Schneidman, Dina

2021

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Macromolecular docking restrained by a small angle X-ray scattering profile

Journal of structural biology, 2011-03, Vol.173 (3), p.461-471

2011

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OpenSim: Simulating musculoskeletal dynamics and neuromuscular control to study human and animal movement

A deep learning model for predicting optimal distance range in crosslinking mass spectrometry data

Exploring the single-cell RNA-seq analysis landscape with the scRNA-tools database

Cytofkit: A Bioconductor Package for an Integrated Mass Cytometry Data Analysis Pipeline

BIDS apps: Improving ease of use, accessibility, and reproducibility of neuroimaging data analysis methods

The SARS-CoV-2 Exerts a Distinctive Strategy for Interacting with the ACE2 Human Receptor

Versatile and multivalent nanobodies efficiently neutralize SARS-CoV-2

The SKMT Algorithm: A method for assessing and comparing underlying protein entanglement

Integrative Structure Modeling: Overview and Assessment

Accurate SAXS Profile Computation and its Assessment by Contrast Variation Experiments

Dissecting peripheral protein-membrane interfaces

NanoNet: Rapid and accurate end-to-end nanobody modeling by deep learning

Comparative Clustering (CompaCt) of eukaryote complexomes identifies novel interactions and sheds light on protein complex evolution

Uncertainty in integrative structural modeling

An integrated suite of fast docking algorithms

De novo STXBP1 mutation in a child with developmental delay and spasticity reveals a major structural alteration in the interface with syntaxin 1A

BIPS—A code base for designing and coding of a Phage ImmunoPrecipitation Oligo Library

Putting the pieces together: integrative modeling platform software for structure determination of macromolecular assemblies

EmbryoMiner: A new framework for interactive knowledge discovery in large-scale cell tracking data of developing embryos

An open source tool for automatic spatiotemporal assessment of calcium transients and local 'signal-close-to-noise' activity in calcium imaging data

ModBase, a database of annotated comparative protein structure models and associated resources

fluEvidenceSynthesis: An R package for evidence synthesis based analysis of epidemiological outbreaks

Insights into HIV-1 proviral transcription from integrative structure and dynamics of the Tat:AFF4:P-TEFb:TAR complex

Integrative modelling of structure and dynamics of macromolecules based on SAXS profiles and cross-linking mass spectrometry

Macromolecular docking restrained by a small angle X-ray scattering profile

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