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CoffeeProt: An online tool for correlation and functional enrichment of proteome-wide systems genetics

Jeffrey Molendijk, Marcus M. Seldin, View ORCID ProfileBenjamin L. Parker
doi: https://doi.org/10.1101/2020.10.02.323246
Jeffrey Molendijk
1Department of Physiology, University of Melbourne, Melbourne, VIC 3010, Australia
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Marcus M. Seldin
2Department of Biological Chemistry and Center for Epigenetics and Metabolism, University of California, Irvine, CA 92697, USA
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Benjamin L. Parker
1Department of Physiology, University of Melbourne, Melbourne, VIC 3010, Australia
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  • ORCID record for Benjamin L. Parker
  • For correspondence: ben.parker@unimelb.edu.au
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ABSTRACT

The integration of genomics, proteomics and phenotypic traits across genetically diverse populations is a powerful approach to discover novel biological regulators. The increasing volume of complex data require new and easy-to-use tools accessible to a variety of scientists for the discovery and visualization of functionally relevant associations. To meet this requirement, we developed CoffeeProt, an open-source tool that analyzes genetic variants associated to protein networks and phenotypic traits. CoffeeProt uses proteomics data to perform correlation network analysis and annotates protein-protein interactions and subcellular localizations. It then integrates genetic and phenotypic associations along with variant effect predictions. We demonstrate its utility with the analysis of mouse and human population data enabling the rapid identification of genetic variants associated with protein complexes and clinical traits. We expect CoffeeProt will serve the proteomics and systems genetics communities, leading to the discovery of novel biologically relevant associations. CoffeeProt is available at www.coffeeprot.com.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • https://coffeeprot.com/

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted October 03, 2020.
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CoffeeProt: An online tool for correlation and functional enrichment of proteome-wide systems genetics
Jeffrey Molendijk, Marcus M. Seldin, Benjamin L. Parker
bioRxiv 2020.10.02.323246; doi: https://doi.org/10.1101/2020.10.02.323246
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CoffeeProt: An online tool for correlation and functional enrichment of proteome-wide systems genetics
Jeffrey Molendijk, Marcus M. Seldin, Benjamin L. Parker
bioRxiv 2020.10.02.323246; doi: https://doi.org/10.1101/2020.10.02.323246

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