v2.3.0


Sample Data:
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Reference Proteome:
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Kinase Substrate Dataset:
RoKAI Network:
Phosphatase Substrate Dataset:
We are developing a new tool to analyze phospho-proteomics data. To access it, please visit: https://rokai.io/explorer
Rokai App is updated! Read about the changes in v2.2.0

Welcome!

RoKAI is a computational tool for inferring kinase activities in a robust manner using functional networks.

Using it first time? To help getting started, try our Interactive Tutorial
Prefer to run locally? Download source code at Github page
Have a quick question or suggestions? Contact us or Use the feature request box
Use RoKAI in your research? Please cite us
Thank you for using RoKAI App!
* For sensitive and/or confidential files, we strongly encourage you to run the RoKAI App locally.
** This tool is intended for educational or academic purposes and it comes with no warranty. See license for more information.

Contact

RoKAI is designed by Serhan Yilmaz and Mehmet Koyuturk at Case Western Reserve University.
If you have any questions, please contact <serhan.yilmaz@case.edu>

Feature Suggestions & Comments

To give feedback, request a new feature or to report a problem, please use the form below:
The name, organization and email fields are optional. Please enter a contact information if you would like to be notified about future updates (e.g., if the requested feature is implemented).

How to cite us?

Please cite the following paper(s) if you use RoKAI in your research:
  • Yilmaz S., Ayati M., Schlatzer D., Cicek A. E., Chance M. R., Koyuturk M. (2021) Robust inference of kinase activity using functional networks Nature Communications 12 (1117)

RoKAI uses the following resources for functional networks:
  • Hornbeck, P. V. et al. (2015) Phosphositeplus, 2014: mutations, ptms and recalibrations. Nucleic acids research 43(D1), D512-D520
  • Licata, L. et al. (2020) SIGNOR 2.0, the SIGnaling network open resource 2.0: 2019 update. Nucleic acids research 48(D1), D504-D510
  • Minguez, P. et al. (2012) PTMcode: a database of known and predicted functional associations between post-translational modifications in proteins. Nucleic acids research 41(D1), D306-D311
  • Szklarczyk, D. et al. (2014) STRING v10: protein–protein interaction networks, integrated over the tree of life. Nucleic acids research 43(D1), D447-D452
  • Damle, N. P., & Köhn, M. (2019) The human DEPhOsphorylation Database DEPOD: 2019 update. Database

Acknowledgement

This work was supported by National Institute of Health (NIH) grant R01-LM012980 from the National Libraries of Medicine.

Dataset Versions

The versions (last modified dates) of the datasets used are as follows:
  • Uniprot:
    		• 2022-10-04
  • PhosphoSitePlus:
    		• 2021-04-19
  • Signor:
    		• 2021-05-21
  • STRING:
    		• 2018-12-20
  • PTMcode:
    		• 2014-09-17
  • DEPOD:
    		• 2019-03-01
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