Inferring interaction partners from protein sequences (Q37379905)

20 August 2017

Inferring interaction partners from protein sequences (English)

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20 August 2017

1

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author name string

Robert S Dwyer

series ordinal

2

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20 August 2017

Lucy J Colwell

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3

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20 August 2017

Ned S Wingreen

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4

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20 August 2017

language of work or name

English

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publication date

23 September 2016

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Proceedings of the National Academy of Sciences of the United States of America

20 August 2017

6

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based on heuristic

inferred from page(s)

published in

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20 August 2017

113

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20 August 2017

43

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20 August 2017

12180-12185

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describes a project that uses

20 August 2017

Pfam

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cites work

Benchmarking Inverse Statistical Approaches for Protein Structure and Design with Exactly Solvable Models

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Inter-Protein Sequence Co-Evolution Predicts Known Physical Interactions in Bacterial Ribosomes and the Trp Operon

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

The Pfam protein families database: towards a more sustainable future

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Coevolutionary Landscape Inference and the Context-Dependence of Mutations in Beta-Lactamase TEM-1.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

P2CS: updates of the prokaryotic two-component systems database.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Sequence co-evolution gives 3D contacts and structures of protein complexes

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

The fitness landscape of HIV-1 gag: advanced modeling approaches and validation of model predictions by in vitro testing

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Robust and accurate prediction of residue-residue interactions across protein interfaces using evolutionary information.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Fast and accurate multivariate Gaussian modeling of protein families: predicting residue contacts and protein-interaction partners

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

The binary protein-protein interaction landscape of Escherichia coli

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Toward rationally redesigning bacterial two-component signaling systems using coevolutionary information

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Predicting functionally informative mutations in Escherichia coli BamA using evolutionary covariance analysis

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Translating HIV sequences into quantitative fitness landscapes predicts viral vulnerabilities for rational immunogen design

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Mechanism-independent method for predicting response to multidrug combinations in bacteria.

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Genomics-aided structure prediction

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Statistical mechanics for natural flocks of birds

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Protein 3D structure computed from evolutionary sequence variation

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Direct-coupling analysis of residue coevolution captures native contacts across many protein families

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

PSICOV: precise structural contact prediction using sparse inverse covariance estimation on large multiple sequence alignments

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Dissecting the specificity of protein-protein interaction in bacterial two-component signaling: orphans and crosstalks

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Maximum entropy models for antibody diversity

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Structural insight into partner specificity and phosphoryl transfer in two-component signal transduction

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

P2CS: a two-component system resource for prokaryotic signal transduction research

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

ABC transporters: the power to change

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Identification of direct residue contacts in protein-protein interaction by message passing

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Specificity in two-component signal transduction pathways

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Using the principle of entropy maximization to infer genetic interaction networks from gene expression patterns

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Weak pairwise correlations imply strongly correlated network states in a neural population

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Evolutionarily conserved pathways of energetic connectivity in protein families

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Rewiring the specificity of two-component signal transduction systems

6 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Improved contact prediction in proteins: using pseudolikelihoods to infer Potts models

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Accurate prediction of protein-protein interactions from sequence alignments using a Bayesian method

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Correlation of co-ordinated amino acid substitutions with function in viruses related to tobacco mosaic virus

26 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5087060

Information Theory and Statistical Mechanics

26 June 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.1606762113

Aligning graphs and finding substructures by a cavity approach

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1073%2FPNAS.1606762113

21 January 2018

Identifiers

DOI

10.1073/PNAS.1606762113

1 reference

20 August 2017

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0 references

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20 August 2017

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