Project Details

PGine: Py/Bioconda software package for calculation of polygenic risk score in plants

Project Period: 1. 3. 2023 - 31. 12. 2023

Project Type: grant

Code: FEKT/FIT-J-23-8274

Agency: Brno University of Technology

Program: Vnitřní projekty VUT

Czech title
PGine: Softwarový balík Py/Bioconda pro výpočet skóre polygenního rizika u rostlin
Type
grant
Keywords

Polygenic Risk Score, Genetic Prediction, 1001 Genomes, Central Molecular Dogma, Arabidopsis thaliana

Abstract

The most important scientific challenges connect to climate change. Prediction algorithms take an important role, including improving plant breeding according to new environmental conditions. Therefore, this project focuses on calculating human disease probability based on genotype information polygenic risk score. This project's main goal is to adapt these algorithms to plant data in functional software. The software can be used to bring new insights into plant breeding and thus uncover possible solutions to the climate crisis.

Team members
Schwarzerová Jana, Ing. et Ing., MSc (FEKT VUT) , research leader
Hurta Martin, Ing. (UPSY FIT VUT)
Sekanina Lukáš, prof. Ing., Ph.D. (UPSY FIT VUT)
Publications

2024

  • SCHWARZEROVÁ Jana, HURTA Martin, BARTOŇ Vojtěch, LEXA Matej, WALTHER Dirk, PROVAZNÍK Valentine and WECKWERTH Wolfram. A perspective on genetic and polygenic risk scores-advances and limitations and overview of associated tools. Briefings in Bioinformatics, vol. 25, no. 3, 2024, pp. 1-11. ISSN 1467-5463. Detail

2023

  • HURTA Martin, SCHWARZEROVÁ Jana, PROVAZNÍK Valentine, WECKWERTH Wolfram, WALTHER Dirk and SEKANINA Lukáš. Utilizing Cartesian Genetic Programming for Efficient Polygenic Risk Score Calculation in Plants. Program and Abstract Book: Swedish Bioinformatics Workshop 2023. Stockholm, 2023. Detail
  • NAGELE Thomas, WECKWERTH Wolfram, HURTA Martin, SCHWARZEROVÁ Jana, SEKANINA Lukáš and PROVAZNÍK Valentine. Utilizing Genetic Programming to Enhance Polygenic Risk Score Calculation. In: 2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM 2023). Istanbul: Institute of Electrical and Electronics Engineers, 2023, pp. 3782-3787. ISBN 979-8-3503-3748-8. Detail
Back to top