SMETANA: accurate and scalable algorithm for probabilistic alignment of large-scale biological networks (Q42139072)

17 October 2017

SMETANA: accurate and scalable algorithm for probabilistic alignment of large-scale biological networks (English)

1 reference

17 October 2017

Sayed Mohammad Ebrahim Sahraeian

series ordinal

1 reference

17 October 2017

Byung-Jun Yoon

series ordinal

1 reference

17 October 2017

language of work or name

English

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publication date

12 July 2013

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17 October 2017

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17 October 2017

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17 October 2017

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17 October 2017

e67995

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Creative Commons Attribution 4.0 International

17 October 2017

start time

12 July 2013

1 reference

April 2022 Public Data File from Crossref

copyrighted

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cites work

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A network synthesis model for generating protein interaction network families

29 May 2018

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AlignNemo: a local network alignment method to integrate homology and topology

29 May 2018

1 reference

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PINALOG: a novel approach to align protein interaction networks--implications for complex detection and function prediction.

29 May 2018

1 reference

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SubMAP: aligning metabolic pathways with subnetwork mappings

29 May 2018

1 reference

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IsoBase: a database of functionally related proteins across PPI networks

29 May 2018

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The BioGRID Interaction Database: 2011 update

29 May 2018

1 reference

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The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored

29 May 2018

1 reference

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PicXAA: greedy probabilistic construction of maximum expected accuracy alignment of multiple sequences

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Effective identification of conserved pathways in biological networks using hidden Markov models

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Functionally guided alignment of protein interaction networks for module detection

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Automatic parameter learning for multiple local network alignment

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Global alignment of protein-protein interaction networks by graph matching methods

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

IsoRankN: spectral methods for global alignment of multiple protein networks

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Domain-oriented edge-based alignment of protein interaction networks

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

A new graph-based method for pairwise global network alignment

29 May 2018

1 reference

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Age-dependent evolution of the yeast protein interaction network suggests a limited role of gene duplication and divergence

29 May 2018

1 reference

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Human Protein Reference Database--2009 update

29 May 2018

1 reference

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Mining physical protein-protein interactions from the literature

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Global alignment of multiple protein interaction networks with application to functional orthology detection

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Graemlin: general and robust alignment of multiple large interaction networks

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Cross-species analysis of biological networks by Bayesian alignment

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Modeling cellular machinery through biological network comparison

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Extraction of biological interaction networks from scientific literature

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Interactome: gateway into systems biology

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Conserved patterns of protein interaction in multiple species

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

ProbCons: Probabilistic consistency-based multiple sequence alignment

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Network biology: understanding the cell's functional organization

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

The Database of Interacting Proteins: 2004 update

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Conserved pathways within bacteria and yeast as revealed by global protein network alignment

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

UPA, a universal protein array system for quantitative detection of protein-protein, protein-DNA, protein-RNA and protein-ligand interactions

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

RESQUE: network reduction using semi-Markov random walk scores for efficient querying of biological networks

29 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

C-GRAAL: common-neighbors-based global GRAph ALignment of biological networks

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Integrative network alignment reveals large regions of global network similarity in yeast and human

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Local optimization for global alignment of protein interaction networks

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

NetworkBLAST: comparative analysis of protein networks.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Identification of functional modules from conserved ancestral protein-protein interactions

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Alignment of molecular networks by integer quadratic programming

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Pairwise alignment of protein interaction networks.

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Systematic identification of functional orthologs based on protein network comparison

17 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3710069

Modeling of Protein Interaction Networks

17 August 2018

1 reference

Crossref

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0067995

Aligning graphs and finding substructures by a cavity approach

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0067995

Evolving protein interaction networks through gene duplication

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23874484

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PONE.0067995

1 reference

17 October 2017

0 references

1 reference

17 October 2017

PubMed publication ID

23874484

1 reference