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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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Computational approaches to predict protein functional families and functional sites

Current opinion in structural biology, 2021-10, Vol.70, p.108-122

2021

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Stability-activity tradeoffs constrain the adaptive evolution of RubisCO

Proceedings of the National Academy of Sciences - PNAS, 2014-02, Vol.111 (6), p.2223-2228

2014

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CATH: expanding the horizons of structure-based functional annotations for genome sequences

Nucleic acids research, 2019-01, Vol.47 (D1), p.D280-D284

2019

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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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Predicting human and viral protein variants affecting COVID-19 susceptibility and repurposing therapeutics

Scientific reports, 2024-06, Vol.14 (1), p.14208-19, Article 14208

2024

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Gene3D: expanding the utility of domain assignments

Nucleic acids research, 2016-01, Vol.44 (D1), p.D404-D409

2016

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An analysis of tissue-specific alternative splicing at the protein level

PLoS computational biology, 2020-10, Vol.16 (10), p.e1008287-e1008287

2020

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CATH FunFHMMer web server: protein functional annotations using functional family assignments

Nucleic acids research, 2015-07, Vol.43 (W1), p.W148-W153

2015

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Low-Density Lipoprotein Receptor Gene Familial Hypercholesterolemia Variant Database: Update and Pathological Assessment

Annals of human genetics, 2012-09, Vol.76 (5), p.387-401

2012

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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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Alpha Helices Are More Robust to Mutations than Beta Strands

PLoS computational biology, 2016-12, Vol.12 (12), p.e1005242-e1005242

2016

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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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Protein families: relating protein sequence, structure, and function

1, 2013

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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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Determining effects of non-synonymous SNPs on protein-protein interactions using supervised and semi-supervised learning

PLoS computational biology, 2014-05, Vol.10 (5), p.e1003592

2014

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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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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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CATH: comprehensive structural and functional annotations for genome sequences

Nucleic acids research, 2015-01, Vol.43 (Database issue), p.D376-D381

2015

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InterPro in 2017-beyond protein family and domain annotations

Nucleic acids research, 2017-01, Vol.45 (D1), p.D190-D199

2017

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Protein function prediction using domain families

Computational approaches to predict protein functional families and functional sites

Stability-activity tradeoffs constrain the adaptive evolution of RubisCO

CATH: expanding the horizons of structure-based functional annotations for genome sequences

Biological impact of mutually exclusive exon switching

Predicting human and viral protein variants affecting COVID-19 susceptibility and repurposing therapeutics

Gene3D: expanding the utility of domain assignments

An analysis of tissue-specific alternative splicing at the protein level

CATH FunFHMMer web server: protein functional annotations using functional family assignments

Low-Density Lipoprotein Receptor Gene Familial Hypercholesterolemia Variant Database: Update and Pathological Assessment

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

Alpha Helices Are More Robust to Mutations than Beta Strands

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

Protein families: relating protein sequence, structure, and function

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

Determining effects of non-synonymous SNPs on protein-protein interactions using supervised and semi-supervised learning

Quantitative profiling of protease specificity

Global patterns of protein domain gain and loss in superkingdoms

Structural and Energetic Characterization of the Ankyrin Repeat Protein Family

CATH: comprehensive structural and functional annotations for genome sequences

InterPro in 2017-beyond protein family and domain annotations

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