A Network Synthesis Model for Generating Protein Interaction Network Families

scientific article published on August 13, 2012

A Network Synthesis Model for Generating Protein Interaction Network Families is …
instance of (P31):
scholarly articleQ13442814

External links are
P819ADS bibcode2012PLoSO...741474S
P356DOI10.1371/JOURNAL.PONE.0041474
P953full work available at URLhttps://europepmc.org/articles/PMC3418285
https://europepmc.org/articles/PMC3418285?pdf=render
https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0041474&type=printable
P932PMC publication ID3418285
P698PubMed publication ID22912671
P5875ResearchGate publication ID230716293

P2093author name stringByung-Jun Yoon
Sayed Mohammad Ebrahim Sahraeian
P2860cites workGene ontology: tool for the unification of biologyQ23781406
KEGG: kyoto encyclopedia of genes and genomesQ24515297
Gapped BLAST and PSI-BLAST: a new generation of protein database search programsQ24545170
Network Archaeology: Uncovering Ancient Networks from Present-Day InteractionsQ33886696
Inferring network mechanisms: the Drosophila melanogaster protein interaction networkQ33927521
MINT, the molecular interaction database: 2012 updateQ34233947
Cross-species analysis of biological networks by Bayesian alignmentQ34984226
Graemlin: general and robust alignment of multiple large interaction networksQ35012998
Identification of potential interaction networks using sequence-based searches for conserved protein-protein interactions or "interologs".Q35037874
SubMAP: aligning metabolic pathways with subnetwork mappingsQ35070376
Querying pathways in protein interaction networks based on hidden Markov modelsQ35467366
PathBLAST: a tool for alignment of protein interaction networksQ35556674
PINA v2.0: mining interactome modules.Q35630696
Inferring domain-domain interactions from protein-protein interactionsQ35806010
Modeling cellular machinery through biological network comparisonQ36443509
Conservation and topology of protein interaction networks under duplication-divergence evolutionQ36787023
Local alignment statisticsQ36811813
Global alignment of multiple protein interaction networks with application to functional orthology detectionQ36848775
Evolution and dynamics of protein interactions and networks.Q37151515
Domain-oriented edge-based alignment of protein interaction networksQ37206317
IsoRankN: spectral methods for global alignment of multiple protein networksQ37206322
Duplication-divergence model of protein interaction network.Q40599685
Functionally guided alignment of protein interaction networks for module detectionQ41814236
Automatic parameter learning for multiple local network alignmentQ42237550
Systematic identification of functional orthologs based on protein network comparisonQ43252162
Integrative network alignment reveals large regions of global network similarity in yeast and humanQ43467712
QNet: a tool for querying protein interaction networksQ43608872
Dense graphlet statistics of protein interaction and random networksQ44125703
Alignment of metabolic pathways.Q45904398
Topology-free querying of protein interaction networksQ46090487
Geometric evolutionary dynamics of protein interaction networks.Q46233784
RESQUE: Network reduction using semi-Markov random walk scores for efficient querying of biological networksQ47580798
Birth of scale-free molecular networks and the number of distinct DNA and protein domains per genome.Q48337100
Identification of functional modules from conserved ancestral protein-protein interactionsQ48392352
Alignment of molecular networks by integer quadratic programmingQ48403322
A duplication growth model of gene expression networksQ48615306
IsoBase: a database of functionally related proteins across PPI networksQ24610321
The IntAct molecular interaction database in 2012Q24621004
APID: Agile Protein Interaction DataAnalyzerQ24680206
Structure and evolution of protein interaction networks: a statistical model for link dynamics and gene duplicationsQ24801714
A scale of functional divergence for yeast duplicated genes revealed from analysis of the protein-protein interaction networkQ24809459
MIPS: analysis and annotation of proteins from whole genomes in 2005.Q25257078
Basic local alignment search toolQ25938991
Emergence of Scaling in Random NetworksQ27037290
Fast algorithm for detecting community structure in networksQ27348772
Rapid and sensitive protein similarity searchesQ27860496
A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiaeQ27860755
Network biology: understanding the cell's functional organizationQ27861027
Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometryQ27861116
The Database of Interacting Proteins: 2004 updateQ28234998
The BioGRID Interaction Database: 2011 updateQ28298160
Assigning protein functions by comparative genome analysis: Protein phylogenetic profilesQ29039336
Human Protein Reference Database--2009 updateQ29547392
Protein interaction maps for complete genomes based on gene fusion eventsQ29616048
Global alignment of protein-protein interaction networks by graph matching methodsQ30487834
Effective identification of conserved pathways in biological networks using hidden Markov modelsQ30974481
QPath: a method for querying pathways in a protein-protein interaction networkQ33239513
Specificity and evolvability in eukaryotic protein interaction networksQ33274191
Not all scale-free networks are born equal: the role of the seed graph in PPI network evolutionQ33290222
Using likelihood-free inference to compare evolutionary dynamics of the protein networks of H. pylori and P. falciparumQ33308253
Age-dependent evolution of the yeast protein interaction network suggests a limited role of gene duplication and divergenceQ33388239
A new graph-based method for pairwise global network alignmentQ33407906
Phylogenetic analysis of modularity in protein interaction networksQ33510438
The topological relationship between the large-scale attributes and local interaction patterns of complex networksQ33581367
UPA, a universal protein array system for quantitative detection of protein-protein, protein-DNA, protein-RNA and protein-ligand interactionsQ33613520
Conserved patterns of protein interaction in multiple speciesQ33837704
Modification of Gene Duplicability during the Evolution of Protein Interaction NetworkQ33872104
Local optimization for global alignment of protein interaction networksQ51775704
NetworkBLAST: comparative analysis of protein networksQ51897368
Pairwise alignment of protein interaction networksQ51944579
Evolutionary analysis reveals low coverage as the major challenge for protein interaction network alignmentQ57979423
Evolving protein interaction networks through gene duplicationQ61733097
How the global structure of protein interaction networks evolvesQ73138526
Protein family and fold occurrence in genomes: power-law behaviour and evolutionary modelQ77135232
P275copyright licenseCreative Commons Attribution 4.0 InternationalQ20007257
P6216copyright statuscopyrightedQ50423863
P433issue8
P407language of work or nameEnglishQ1860
P921main subjectstatistical modelQ3284399
protein interaction mapQ65561205
P304page(s)e41474
P577publication date2012-08-13
P1433published inPLOS OneQ564954
P1476titleA network synthesis model for generating protein interaction network families
A Network Synthesis Model for Generating Protein Interaction Network Families
P478volume7

Reverse relations

cites work (P2860)
Q38209272A comparison of algorithms for the pairwise alignment of biological networks
Q39041401A multiobjective memetic algorithm for PPI network alignment
Q35092854Accurate multiple network alignment through context-sensitive random walk
Q45483010BEAMS: backbone extraction and merge strategy for the global many-to-many alignment of multiple PPI networks
Q35183918GASOLINE: a Greedy And Stochastic algorithm for optimal Local multiple alignment of Interaction NEtworks
Q35785438L-GRAAL: Lagrangian graphlet-based network aligner
Q58563183Modelling Self-Organization in Complex Networks Via a Brain-Inspired Network Automata Theory Improves Link Reliability in Protein Interactomes
Q92967141NAPAbench 2: A network synthesis algorithm for generating realistic protein-protein interaction (PPI) network families
Q36220729PROPER: global protein interaction network alignment through percolation matching.
Q55514116PrimAlign: PageRank-inspired Markovian alignment for large biological networks.
Q42139072SMETANA: Accurate and Scalable Algorithm for Probabilistic Alignment of Large-Scale Biological Networks
Q42687580SPINAL: scalable protein interaction network alignment
Q35880992Scope and limitations of yeast as a model organism for studying human tissue-specific pathways
Q97561863Small-world networks of prognostic genes associated with lung adenocarcinoma development

Search more.