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OmniPath specifications


Unique identifier OMICS_19251
Name OmniPath
Restrictions to use None
Community driven No
Data access Application programming interface
User data submission Not allowed
Maintained Yes


  • person_outline denes
  • person_outline Julio Saez-Rodriguez

Publication for OmniPath

OmniPath citations


Discriminate the response of Acute Myeloid Leukemia patients to treatment by using proteomics data and Answer Set Programming

BMC Bioinformatics
PMCID: 5850944
PMID: 29536824
DOI: 10.1186/s12859-018-2034-4

[…] compiling signaling networks may be considered time demanding, many publicly available resources containing regulatory information currently exist such as KEGG [], Reactome [, ], Pathway Commons [], OmniPath [] and NDEX []. Some of these resources have available tools or Cytoscape [] plug-ins to extract networks given a list of molecules, such as ReactomeFIViz [] for Reactome, CyPath2 [] for Path […]


Integrative Computational Network Analysis Reveals Site Specific Mediators of Inflammation in Alzheimer's Disease

Front Physiol
PMCID: 5840953
PMID: 29551980
DOI: 10.3389/fphys.2018.00154

[…] ignaling interactions with direction (source-target relationship) and sign (activation or inhibition) as an input for our method. For this, we used publicly available signaling interactions databases OmniPath and ReactomeFI (Wu et al., ; Turei et al., ). We combined them by removing the redundant interactions commonly present in both databases (by removing the duplicate entry) to acquire only uniq […]


Logic Modeling in Quantitative Systems Pharmacology

PMCID: 5572374
PMID: 28681552
DOI: 10.1002/psp4.12225

[…] ted to many different other cases. Once we have chosen a system to model, the first step is to build a network based on what is known about the system (PKN). Here, public databases and resources like Omnipath help to gather and relate known information. When appropriate experimental data are available, they can be used to refine the PKN. Tools like CellNOpt help us in this process. Finally, with a […]


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OmniPath institution(s)
European Molecular Biology Laboratory–European Bioinformatics Institute, Hinxton, UK; Earlham Institute, Norwich, UK; Institute of Food Research, Norwich, UK; RWTH Aachen University, Faculty of Medicine, Joint Research Centre for Computational Biomedicine, Aachen, Germany
OmniPath funding source(s)
This work was supported by the EMBL Interdisciplinary Postdoc Programme (EIPOD) under Marie Skłodowska-Curie COFUND Actions (grant number 291772), a fellowship in computational biology at the Earlham Institute (Norwich, UK) in partnership with the Institute of Food Research (Norwich, UK), and strategically supported by Biotechnological and Biosciences Research Council, UK (BB/J004529/1).

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