I'm a bioinformatician living in the Netherlands. I started out in plant breeding, working on QTL mapping for stress tolerance in wheat and rice. These days I mostly work with single-cell, cancer genomics and exposome data.

• MSc thesis (MARVEL): I'm combining several single-cell RNA-seq atlases of Arabidopsis root regeneration into one annotated cell-type map, and following how transcription factors change during regeneration.
• Internship at the Hubrecht Institute: cancer genomics.

• maternal-exposome: untargeted exposome analysis of maternal blood in a matched case-control design, from drift correction and mass-based annotation to conditional logistic regression and mixture models. Tested on a simulated study, then applied to pregnancy exposures in the HELIX data.
• neoantigen-pipeline: from a tumour's somatic mutations and RNA-seq to the mutant peptides its own HLA class I molecules could present. Tested on simulated data, then run on the HCC1395 cell line.
• smc-evolution: how the SMC proteins (cohesin, condensin, SMC5/6) evolved across 14 eukaryotes from all six supergroups, with a maximum-likelihood tree.
• pathway-vae: a neural network for single-cell data in which every hidden variable is linked to a known pathway, so you can see directly which pathways are active in each cell. I tested it on simulated data and on human blood cells.

Python (scanpy, pandas, scikit-learn, PyTorch) · statistics (GLMs, QTL mapping) · Linux and HPC clusters (Slurm) · Git

BSc and MSc in Plant Breeding at the University of Tehran, followed by research at the Agricultural Biotechnology Research Institute of Iran on QTL analysis under salt stress. Publication: Identification of wheat peduncle length QTLs as a criterion for heat tolerance.

I'm currently looking for a PhD position in bioinformatics. Feel free to contact me on LinkedIn.