Faraneh Haddadi
Brno
Summary
PhD candidate at Loschmidt Laboratories in Brno, Czech Republic, specializing in machine learning and AI applications for protein engineering and biochemistry. Expertise includes developing a classification method for identifying functional protein pockets, now integrated into EMBL-EBI’s ChannelsDB, and successfully adapting advanced image processing techniques for analyzing 3D molecular dynamics data. Proficient in leveraging structural biochemistry data with explainable AI methods to uncover critical functional determinants of biomolecules, while innovating machine learning approaches to address complex scientific challenges. Committed to advancing research through the integration of cutting-edge technology and analytical methodologies.
Overview
5
5
years of professional experience
2
2
Languages
Work History
Researcher - Artificial Intelligence in Protein Engineering
Loschmidt Laboratories, Faculty of Science of Masaryk University and RECETOX
Brno
01.2021 - Current
Data Analyst
SAEI Group
Tehran
09.2020 - 05.2021
- Produced monthly reports using advanced Excel spreadsheet functions.
- Used statistical methods to analyze data and generate useful business reports.
- Improved decision-making processes with accurate data analysis and visualization techniques.
- Utilized data visualization tools to effectively communicate business insights.
Education
PhD - Artificial Intelligence in Protein Engineering
Masaryk University
12-2025
MSc - Software Engineering
Alzahra University
01.2020
BSc - Software Engineering
K. N. Toosi University of Technology
01.2013
Skills
Python programming
Machine learning
Statistical analysis
Data visualization
SQL databases
Scikit-learn
Neural networks
Linear algebra
Deep learning
Data analytics
Data preprocessing and cleaning
Problem-solving abilities
Teamwork and collaboration
Attention to detail
Written communication
Time management abilities
Publications
- [2023] Machine Learning-Guided Protein Engineering, ACS Catalysis DOI: 10.1021/acscatal.3c02743 Kouba, P, Kohout, P, Haddadi, F, & Other Authors.
- [2024] Large-scale Annotation of Biochemically Relevant Pockets and Tunnels in Cognate Enzyme-Ligand Complexes, Journal of Cheminformatics DOI: 10.1101/2023.03.29.534735 Vavra, O, Tyzack, J, Haddadi, F, Stourac, J, Damborsky, J, Mazurenko, S, Thornton, J, Bednar, D.
Training
- Prague ELIXIR CZ Annual Conference 2021 Machine Learning for Annotating Cavities - presentation
- Lyon ISMB/ECCB Conference 2023 Capturing Protein Dynamics and Their Determinants Using Explainable Artificial Intelligence - poster
TEACHING
- Artificial Intelligence in Biology, Chemistry, Bioengineering - Masaryk University - Practicals. (2022-2023)
- Principles of Compiler Design - K.N Toosi University of Technology and Alzahra University - Seminars. (2014-2019)
- Math, Statistics, and Probability - Private teaching institute, Karaj, Iran - Lessons. (2014-2019)
Timeline
Researcher - Artificial Intelligence in Protein Engineering
Loschmidt Laboratories, Faculty of Science of Masaryk University and RECETOX
01.2021 - Current
Data Analyst
SAEI Group
09.2020 - 05.2021
MSc - Software Engineering
Alzahra University
BSc - Software Engineering
K. N. Toosi University of Technology
PhD - Artificial Intelligence in Protein Engineering
Masaryk University