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MATISSE specifications


Unique identifier OMICS_08332
Alternative name Module Analysis via Topology of Interactions and Similarity SEts
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Windows
Computer skills Medium
Stability Stable
Maintained Yes




No version available


  • person_outline Ron Shamir
  • person_outline Ulitsky Igor

Publications for Module Analysis via Topology of Interactions and Similarity SEts

MATISSE citations


ModuleDiscoverer: Identification of regulatory modules in protein protein interaction networks

Sci Rep
PMCID: 5764996
PMID: 29323246
DOI: 10.1038/s41598-017-18370-2

[…] duleDiscoverer. With respect to MF (Fig. , middle), the GO-term list of the KeyPathwayMiner module shows a high correlation with the GO-term list derived from the set of DEGs. The GO-term list of the MATISSE module are correlated with the GO-term lists of both ModuleDiscoverer modules. Overall, GO-term lists derived from the modules of MATISSE, KeyPathwayMiner as well as ModuleDiscoverer show a po […]


An effective approach to detecting both small and large complexes from protein protein interaction networks

BMC Bioinformatics
PMCID: 5657047
PMID: 29072136
DOI: 10.1186/s12859-017-1820-8

[…] rs by exploiting additional information other than solely based on topological features. Due to the fact that interacting proteins are likely to have similar gene expression profiles, methods such as MATISSE [], DMSP [] and GFA [] presented various approaches to re-weight the PIN using gene expression data. As it is expected that proteins in the same complex may have high functional similarity, SW […]


Benchmarking selected computational gene network growing tools in context of virus host interactions

Sci Rep
PMCID: 5517527
PMID: 28724991
DOI: 10.1038/s41598-017-06020-6

[…] he network are expected to have similar function with the expressed genes that could be missed by the experiments. Such sub-network extraction tools, given user input of gene expression data, include DEGAS (DysrEgulated Gene set Analysis via Subnetworks), KeyPathwayMiner, and JActiveModules. While other methods (e.g. Search Tool for the Retrieval of Interacting Genes/Proteins (STRING), GeneMANIA a […]


Pulmonary microRNA profiles identify involvement of Creb1 and Sec14l3 in bronchial epithelial changes in allergic asthma

Sci Rep
PMCID: 5382551
PMID: 28383034
DOI: 10.1038/srep46026

[…] resistant or untreated asthma, and the other reporting an increase of total CREB in peripheral blood of patients with recurrent wheeze. However, in a novel analysis of published gene expression data (DEGAS = DysrEgulated Gene set Analysis via Subnetworks) with the aim to identify subnetworks and dysregulated pathways in diseases, CREB1 was listed as down-regulated in airway epithelial cells of pat […]


On the performance of de novo pathway enrichment

NPJ Syst Biol Appl
PMCID: 5445589
PMID: 28649433
DOI: 10.1038/s41540-017-0007-2
call_split See protocol

[…] ks. (b) COSINE is a score propagation method that includes not only nodes but also edges in its scoring function. Edges correspond to differential gene–gene co-expression across different groups. (c) DEGAS is a module cover approach that uses a shortest path heuristic to identify sub-networks with at least K “active” nodes, with “active” being defined via the proportion of active cases in the expe […]


Exome sequencing of Pakistani consanguineous families identifies 30 novel candidate genes for recessive intellectual disability

Mol Psychiatry
PMCID: 5658665
PMID: 27457812
DOI: 10.1038/mp.2016.109

[…] xtracted all reported protein–protein interactions involving the known and the newly identified ID proteins and then entered them into a set of protein–protein interaction networks via the STRING and MATISSE algorithms, which are included in the EXPANDER package tools. […]


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MATISSE institution(s)
School of Computer Science, Tel Aviv University, Tel Aviv, Israel

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