About Me
I’m Mehdi, born in Iran, living and studying in Canada. I’m passionate about AI, genomics, and food 🙂.
I’m a PhD student and a research assistant in the Computational Biology lab in the Computing Science department at SFU. My research interests are machine learning, probabilistic modelling, and genomics.
📚 Education
2022 - 2026
Ph.D. Computing Science, Simon Fraser University
2020 - 2022
MSc. Computing Science, Simon Fraser University,
CGPA : 4.0 /4.33
2015 - 2019
BSc. Cell and Molecular Biology- Microbiology, University of Tehran, GPA (Final Two Years) : 3.68 /4
📜 Publications
- Foroozandeh Shahraki, Mehdi, et al. ”A computational learning paradigm to targeted discovery of biocatalysts from metagenomic data : a case study of lipase identification” Biotechnology and Bioengineering :21-130.R1 (2022).
- Foroozandeh Shahraki, Mehdi, et al. ”A generalized machine-learning aided method for targeted identification of industrial enzymes from metagenome : A xylanase temperature dependence case study.” Biotechnology and Bioengineering (2020).
- Foroozandeh Shahraki, Mehdi, et al. ”MCIC : Automated Identification of Cellulases From Metagenomic Data and Characterization Based on Temperature and pH Dependence.” Frontiers in microbiology 11 (2020).
- Maleki, Morteza, et al. ”A novel thermostable cellulase cocktail enhances lignocellulosic bioconversion and biorefining in a broad range of pH.” International journal of biological macromolecules 154 (2020) : 349-360.
- Ariaeenejad, Shohreh, et al. ”A novel high performance in-silico screened metagenome-derived alkali-thermostable endo-β-1, 4-glucanase for lignocellulosic biomass hydrolysis in the harsh conditions.” BMC biotechnology 20.1 (2020) : 1-13.
- Foroozandeh Shahraki, Mehdi, et al. ”Evaluating the reproducibility of segmentation and genome annotation (SAGA) algorithms” Poster at Machine Learning in Computational Biology 2021 (full submission in progress).
🎒 Experience
September 2020
Present
Research Assistant, SIMON FRASER UNIVERISTY, Department of Computing Sciences
- At Libbrecht Computational Biology Lab
- Research on evaluating the reproducibility of predictions of a class of probabilistic graphical models (SAGA methods).
- Research on building and optimizing deep learning models capable of predicting bacterial antibiotic resistance from genome sequence data.
- Machine Learning; Probabilistic Modeling; Genomics; Epigenomics; Deep Learning; Drug Resistance
January 2019
September 2020
Research Assistant, UNIVERSITY OF TEHRAN, IBB- Department of Bioinformatics
- At Complex Biological Systems and Bioinformatics (CBB) lab, led by Dr.Kavousi.
- Research on developing machine learning and deep learning models for predicting enzyme properties.
- Research on developing machine learning and deep learning models for predicting enzyme properties.
- Research on the discovery of novel enzymes with particular applications from metagenomic sources
- Collaboration in writing and editing academic publications
- Machine Learning; Metagenomics; Enzymes; Bioinformatics
🛠 Skills
Programming
Python, MATLAB
Tools and Software
TensorFlow, Keras, Scikit-learn, Scikit-optimize, Numpy, Pandas, Biopython, NCBI Toolkit, Segway, ChromHMM
Other
Unix Shell Scripting, Docker, LATEX, Linux, Web Scraping
Laboratory Skills
Microbial Culture, PCR, DNA extraction, Gene Cloning, Gel Electrophoresis
Languages
English, Persian (Native)