Mehran Karimzadeh's GitHub Page

I am currently a Staff Scientist at Exai Bio and am based in Seattle, WA.

Previously, I was a CIHR post-doctoral fellow co-supervised by Dr. Hani Goodarzi at UCSF and Dr. Bo Wang at Vector Institute for Artificial Intelligene and University Health Network. I did my Ph.D. with Dr. Michael Hoffman at University of Toronto. I am interested in developing deep learning models for detection of disease phenotypes using high-throughput genomic datasets.

Mehran's CV »

Select publications

The list includes peer-reviewed as well as non-peer-reviewed items where Mehran is the first or co-first author

Multi-modal single-cell atlas of the human breast upon androgen therapy
The molecular consequences of androgen activity in the human breast. Cell Genomics, 2023.

HPV Epigenomics
Viral integration transforms chromatin to drive oncogenesis. Genome Biology, 2023.

Transcription factor prediction
Virtual ChIP-seq: predicting transcription factor binding by learning from the transcriptome. Genome Biology 2022.

Methylome mappability
Umap and Bismap: quantifying genome and methylome mappability. Nucleic Acids Research 2018.

Cancer aberration hubs
Aberration hubs in protein interaction networks highlight actionable targets in cancer. Oncotarget 2018.

Bioinformatics software documentation
Top considerations for creating bioinformatics software documentation. Briefings in Bioinformatics 2018.

Latest Work

Recent publications

Experimental and natural evidence of SARS-CoV-2-infection-induced activation of type I interferon responses

Collaboration with Mossman lab, 2021

Massively multiplex single-molecule oligonucleosome footprinting

Collaboration with Ramani lab, 2020

Multiscale interactome analysis coupled with off-target drug predictions reveals drug repurposing candidates for human coronavirus disease

Collaboration with Cyclica and Ryerson, 2020–2021

The molecular consequences of androgen activity in the human breast

Collaboration with Knott lab, 2020–2022

Class presentations

DNA methylation workshop for Genomic Methodologies, University of Toronto
Isoform analysis workshop for Genomic Methodologies course, University of Toronto
Introduction to biostatistics for Department of Medical Biophysics, University of Toronto (2018)
Introduction to biostatistics for Department of Medical Biophysics, University of Toronto (2019)
Introduction to ggplot for MBP Tech talks, University of Toronto
Introduction to R for MBP Tech Talks, University of Toronto

Mehran Karimzadeh's GitHub Page

Select publications

Multi-modal single-cell atlas of the human breast upon androgen therapy

HPV Epigenomics

Transcription factor prediction

Methylome mappability

Cancer aberration hubs

Bioinformatics software documentation