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The DOMINO web-server for active module identification analysis

View ORCID ProfileHagai Levi, Nima Rahmanian, View ORCID ProfileRan Elkon, View ORCID ProfileRon Shamir
doi: https://doi.org/10.1101/2021.11.25.469692
Hagai Levi
1The Blavatnik School of Computer Science, Tel Aviv University, Tel Aviv 69978, Israel
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Nima Rahmanian
2University of California, Berkeley, CA, USA
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Ran Elkon
3Department of Human Molecular Genetics and Biochemistry, Sackler School of Medicine, Tel Aviv University 69978, Tel Aviv, Israel
4Sagol School of Neuroscience, Tel Aviv University, Tel Aviv 69978, Israel
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Ron Shamir
1The Blavatnik School of Computer Science, Tel Aviv University, Tel Aviv 69978, Israel
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  • For correspondence: rshamir@mail.tau.ac.il
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Abstract

Active module identification (AMI) is an essential step in many omics analyses. Such algorithms receive a gene network and a gene activity profile as input and report subnetworks that show significant over-representation of accrued activity signal (“active modules”). Such modules can point out key molecular processes in the analyzed biological conditions.

Results We recently introduced a novel AMI algorithm called DOMINO, and demonstrated that it detects active modules that capture biological signals with markedly improved rate of empirical validation. Here, we provide an online server that executes DOMINO, making it more accessible and user-friendly. To help the interpretation of solutions, the server provides GO enrichment analysis, module visualizations, and accessible output formats for customized downstream analysis. It also enables running DOMINO with various gene identifiers of different organisms.

Availability and implementation The server is available at http://domino.cs.tau.ac.il. Its codebase is available at https://github.com/Shamir-Lab.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

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Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted November 26, 2021.
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The DOMINO web-server for active module identification analysis
Hagai Levi, Nima Rahmanian, Ran Elkon, Ron Shamir
bioRxiv 2021.11.25.469692; doi: https://doi.org/10.1101/2021.11.25.469692
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The DOMINO web-server for active module identification analysis
Hagai Levi, Nima Rahmanian, Ran Elkon, Ron Shamir
bioRxiv 2021.11.25.469692; doi: https://doi.org/10.1101/2021.11.25.469692

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