CrossTalkZ statistics

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CrossTalkZ specifications

Information


Unique identifier OMICS_10082
Name CrossTalkZ
Software type Package/Module
Interface Command line interface
Restrictions to use None
Output data z-score, p-value, false discovery rate, a test of normality for the N/A distributions
Operating system Unix/Linux
Programming languages C
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Erik Sonnhammer

Publication for CrossTalkZ

CrossTalkZ citations

 (3)
library_books

FunGeneNet: a web tool to estimate enrichment of functional interactions in experimental gene sets

2018
BMC Genomics
PMCID: 5836822
PMID: 29504895
DOI: 10.1186/s12864-018-4474-7

[…] ne networks with random networks is an alternative approach for determining functional connectivity in experimental sets of genes/proteins [–]. In the work of McCormack et al. [], a stand-alone tool, CrossTalkZ, was developed to assess the statistical significance of inter and intra-connectivity (crosstalk enrichment) between or within gene sets. CrossTalkZ uses the FunCoup database for the recons […]

library_books

Network Analysis of Functional Genomics Data: Application to Avian Sex Biased Gene Expression

2012
Sci World J
PMCID: 3540752
PMID: 23319882
DOI: 10.1100/2012/130491

[…] o genes of the same bias, we compared the connection frequencies between the different categories to what is expected by chance alone. For topology-preserving randomization of the network we used the CrossTalkZ program (see ) and performed 100 randomization runs. The results for the embryonic and adult gonads are shown in .In the gonad we found genes of the same sex bias (e.g., male versus male) t […]

library_books

Comparative interactomics with Funcoup 2.0

2011
Nucleic Acids Res
PMCID: 3245127
PMID: 22110034
DOI: 10.1093/nar/gkr1062

[…] re obtained by complementary approaches, and one wants to test the hypothesis that they are significantly related. This can currently not be done statistically on the website, but a new separate tool CrossTalkZ can perform such tests.Enter gene set identifiers (many types are supported) into the query box.Set network distance to 0 and confidence cut-off to 0.5.Run query. If the subnetwork appears […]

Citations

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CrossTalkZ institution(s)
Stockholm Bioinformatics Centre, Science for Life Laboratory, Solna, Sweden; Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden

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