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Protein function prediction using domain families

BMC bioinformatics, 2013-02, Vol.14 Suppl 3 (Suppl 3), p.S5-S5, Article S5

2013

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Biological impact of mutually exclusive exon switching

PLoS computational biology, 2021-03, Vol.17 (3), p.e1008708-e1008708

2021

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Generating functional protein variants with variational autoencoders

PLoS computational biology, 2021-02, Vol.17 (2), p.e1008736-e1008736

2021

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Analysis of temporal transcription expression profiles reveal links between protein function and developmental stages of Drosophila melanogaster

PLoS computational biology, 2017-10, Vol.13 (10), p.e1005791-e1005791

2017

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Exploring the evolution of novel enzyme functions within structurally defined protein superfamilies

PLoS computational biology, 2012-03, Vol.8 (3), p.e1002403-e1002403

2012

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Inferring function using patterns of native disorder in proteins

PLoS computational biology, 2007-08, Vol.3 (8), p.e162-e162

2007

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An Ancient Fingerprint Indicates the Common Ancestry of Rossmann-Fold Enzymes Utilizing Different Ribose-Based Cofactors

PLoS biology, 2016-03, Vol.14 (3), p.e1002396-e1002396

2016

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Genome-wide RNA-Sequencing analysis identifies a distinct fibrosis gene signature in the conjunctiva after glaucoma surgery

Scientific reports, 2017-07, Vol.7 (1), p.5644-13, Article 5644

2017

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Diversity and distribution of nuclease bacteriocins in bacterial genomes revealed using Hidden Markov Models

PLoS computational biology, 2017-07, Vol.13 (7), p.e1005652-e1005652

2017

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The complexity of protein interactions unravelled from structural disorder

PLoS computational biology, 2021-01, Vol.17 (1), p.e1008546-e1008546

2021

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Systematic Mapping of Protein Mutational Space by Prolonged Drift Reveals the Deleterious Effects of Seemingly Neutral Mutations

PLoS computational biology, 2015-08, Vol.11 (8), p.e1004421

2015

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Conformational diversity analysis reveals three functional mechanisms in proteins

PLoS computational biology, 2017-02, Vol.13 (2), p.e1005398

2017

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Quantitative profiling of protease specificity

PLoS computational biology, 2021-02, Vol.17 (2), p.e1008101-e1008101

2021

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Global patterns of protein domain gain and loss in superkingdoms

PLoS computational biology, 2014-01, Vol.10 (1), p.e1003452-e1003452

2014

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Exploring the composition of protein-ligand binding sites on a large scale

PLoS computational biology, 2013-11, Vol.9 (11), p.e1003321

2013

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FLORA: a novel method to predict protein function from structure in diverse superfamilies

PLoS computational biology, 2009-08, Vol.5 (8), p.e1000485

2009

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CATHEDRAL: a fast and effective algorithm to predict folds and domain boundaries from multidomain protein structures

PLoS computational biology, 2007-11, Vol.3 (11), p.e232-e232

2007

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Structural and Energetic Characterization of the Ankyrin Repeat Protein Family

PLoS computational biology, 2015-12, Vol.11 (12), p.e1004659-e1004659

2015

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An Atlas of Peroxiredoxins Created Using an Active Site Profile-Based Approach to Functionally Relevant Clustering of Proteins

PLoS computational biology, 2017-02, Vol.13 (2), p.e1005284-e1005284

2017

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Functional Basis of Microorganism Classification

PLoS computational biology, 2015-08, Vol.11 (8), p.e1004472-e1004472

2015

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Polymorphic sites preferentially avoid co-evolving residues in MHC class I proteins

PLoS computational biology, 2018-05, Vol.14 (5), p.e1006188-e1006188

2018

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Comparative evolutionary analysis of protein complexes in E. coli and yeast

BMC genomics, 2010-02, Vol.11 (1), p.79-79

2010

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Recognition of sites of functional specialisation in all known eukaryotic protein kinase families

PLoS computational biology, 2018-02, Vol.14 (2), p.e1005975-e1005975

2018

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Bayesian Top-Down Protein Sequence Alignment with Inferred Position-Specific Gap Penalties

PLoS computational biology, 2016-05, Vol.12 (5), p.e1004936-e1004936

2016

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Exploring fold space preferences of new-born and ancient protein superfamilies

PLoS computational biology, 2013-11, Vol.9 (11), p.e1003325-e1003325

2013

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Protein function prediction using domain families

Biological impact of mutually exclusive exon switching

Generating functional protein variants with variational autoencoders

Analysis of temporal transcription expression profiles reveal links between protein function and developmental stages of Drosophila melanogaster

Exploring the evolution of novel enzyme functions within structurally defined protein superfamilies

Inferring function using patterns of native disorder in proteins

An Ancient Fingerprint Indicates the Common Ancestry of Rossmann-Fold Enzymes Utilizing Different Ribose-Based Cofactors

Genome-wide RNA-Sequencing analysis identifies a distinct fibrosis gene signature in the conjunctiva after glaucoma surgery

Diversity and distribution of nuclease bacteriocins in bacterial genomes revealed using Hidden Markov Models

The complexity of protein interactions unravelled from structural disorder

Systematic Mapping of Protein Mutational Space by Prolonged Drift Reveals the Deleterious Effects of Seemingly Neutral Mutations

Conformational diversity analysis reveals three functional mechanisms in proteins

Quantitative profiling of protease specificity

Global patterns of protein domain gain and loss in superkingdoms

Exploring the composition of protein-ligand binding sites on a large scale

FLORA: a novel method to predict protein function from structure in diverse superfamilies

CATHEDRAL: a fast and effective algorithm to predict folds and domain boundaries from multidomain protein structures

Structural and Energetic Characterization of the Ankyrin Repeat Protein Family

An Atlas of Peroxiredoxins Created Using an Active Site Profile-Based Approach to Functionally Relevant Clustering of Proteins

Functional Basis of Microorganism Classification

Polymorphic sites preferentially avoid co-evolving residues in MHC class I proteins

Comparative evolutionary analysis of protein complexes in E. coli and yeast

Recognition of sites of functional specialisation in all known eukaryotic protein kinase families

Bayesian Top-Down Protein Sequence Alignment with Inferred Position-Specific Gap Penalties

Exploring fold space preferences of new-born and ancient protein superfamilies

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