Interaction network
Neighbor overlap is enriched in the yeast interaction network: analysis and implications.
... yeast network when compared with the control network for bins of ...control network based on the Mann Whitney U test (with ...control network. In this network we collapsed all proteins ...
9
Benchmarking pathway interaction network for colorectal cancer to identify dysregulated pathways
... Protein-protein interaction (PPI) information and pathway data were retrieved from STRING and Reactome data- bases, ...pathway interaction network (PIN), where each node represented a biological ...
8
Amino Acid Interaction Network Prediction Using Multi-Objective Optimization
... of interaction between amino acids which form chemical bond to make protein ...a interaction network of amino acids using two new emerging optimization techniques, multi-objective optimization based ...
14
An integrated text mining framework for metabolic interaction network reconstruction
... metabolic interaction network (Metabolic Interaction Network Reconstruction ...through network reconstruction showed a fair performance for the MINR module on the test corpus with ...
23
Predicting protein phenotypes based on protein-protein interaction network.
... Methodology/Principal Findings: Here, we proposed a new method for predicting protein phenotypes in yeast based on protein-protein interaction network. Instead of only the most likely phenotype, a series of ...
8
Unveiling protein functions through the dynamics of the interaction network.
... Protein interaction networks have become a tool to study biological processes, either for predicting molecular functions or for designing proper new drugs to regulate the main biological ...the network ...
7
An evolutionarily conserved synthetic lethal interaction network identifies FEN1 as a broad-spectrum target for anticancer therapeutic development.
... genetic interaction data, we used cultured human cells and siRNA to construct and evaluate a synthetic lethal interaction network comprised of chromosome instability (CIN) genes that are frequently ...
11
Reconstruction and validation of RefRec: a global model for the yeast molecular interaction network.
... Metabolic network reconstructions are obtained by automated methods which work mainly by using genomic sequence information [3–8], but also by taking into account additional data on ...metabolic network ...
13
Computational analysis of HIV-1 resistance based on gene expression profiles and the virus-host interaction network.
... protein interaction network and the STRING human protein interaction network, 29 infection information exchanger and HIV-1 resistance genes (see Table S4) were ...
6
Systematic interaction network filtering identifies CRMP1 as a novel suppressor of huntingtin misfolding and neurotoxicity
... PPI network that includes more than 500 known interaction partners directly or indirectly linked to ...sequential interaction network filter- ing, we defined 13 HTT-associated human proteins ...
14
Exploring hierarchical and overlapping modular structure in the yeast protein interaction network
... Conference on Bioinformatics (InCoB2010): Bioinformatics and Immunome Research Volume 6 Supplement 1, 2010: Ninth International Conference on. Bioinformatics (InCoB2010): Immunome Res[r] ...
1
A network-based gene expression signature informs prognosis and treatment for colorectal cancer patients.
... protein-protein interaction network ...protein-protein interaction network. Therefore, we used a network-based approach to integrate these signatures on the protein-protein ...
13
Structure-based network analysis of activation mechanisms in the ErbB family of receptor tyrosine kinases: the regulatory spine residues are global mediators of structural stability and allosteric interactions.
... The interaction network of the active dimers is strongly influenced by the JM-B segment and could lead to a denser network near the mediating ...of network robustness against random ...
46
Heat shock factors in tomatoes: genome-wide identification, phylogenetic analysis and expression profiling under development and heat stress
... The HSF (heat shock factor) gene family contains highly conserved plant-specific transcription factors that play an important role in plant high-temperature stress responses. The present study aimed to characterize the ...
16
A computational method based on the integration of heterogeneous networks for predicting disease-gene associations.
... protein interaction network rather than random selected n genes are used, and the irrelevant items and the irrelevant control set are constructed in the same way as ...
10
Mutational robustness of gene regulatory networks.
... upon network rewiring, for each network, one ‘wildtype’ simulation was done, and two simulations of mutated ...mutated network was obtained with a protein-protein interaction change, where a ...
9
Network compression as a quality measure for protein interaction networks.
... neural network, Internet, network of North American airports, software module dependency in Java and CytoScape, and others (see methods for complete list and ...neural network of ...protein ...
22
Module discovery by exhaustive search for densely connected, co-expressed regions in biomolecular interaction networks.
... (either interaction network or gene expression ...on interaction network data, SAMBA [17] operates only on gene expression data (note that SAMBA can in theory also be used to integrate other ...
15
Two independent positive feedbacks and bistability in the Bcl-2 apoptotic switch.
... Bcl-2 interaction network established by anti-apoptotic group of Bcl-2 family ...Bcl-2 interaction network and provide insights into pharmacological manipulation of Bcl-2 apoptotic switch as ...
9