Mehran Karimzadeh
Mehran Karimzadeh
Exai Bio
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Variation in genomic landscape of clear cell renal cell carcinoma across Europe
G Scelo, Y Riazalhosseini, L Greger, L Letourneau, M GonzÓlez-Porta, ...
Nature communications 5 (1), 5135, 2014
Umap and Bismap: quantifying genome and methylome mappability
M Karimzadeh, C Ernst, A Kundaje, MM Hoffman
Nucleic Acids Research 46 (20), e120, 2018
Massively multiplex single-molecule oligonucleosome footprinting
NJ Abdulhay, CP McNally, LJ Hsieh, S Kasinathan, A Keith, LS Estes, ...
Elife 9, e59404, 2020
A general framework for interrogation of mRNA stability programs identifies RNA-binding proteins that govern cancer transcriptomes
G Perron, P Jandaghi, S Solanki, M Safisamghabadi, C Storoz, ...
Cell Reports 23 (6), 1639-1650, 2018
Experimental and natural evidence of SARS-CoV-2-infection-induced activation of type I interferon responses
A Banerjee, N El-Sayes, P Budylowski, RA Jacob, D Richard, H Maan, ...
IScience 24 (5), 2021
Top considerations for creating bioinformatics software documentation
M Karimzadeh, MM Hoffman
Briefings in Bioinformatics 19 (4), 693–699, 2017
Virtual ChIP-seq: Predicting transcription factor binding by learning from the transcriptome
M Karimzadeh, MM Hoffman
Genome biology 23 (126),, 2022
Single-cell profiling of healthy human kidney reveals features of sex-based transcriptional programs and tissue-specific immunity
CM McEvoy, JM Murphy, L Zhang, S Clotet-Freixas, JA Mathews, J An, ...
Nature Communications 13 (1), 7634, 2022
Human papillomavirus integration transforms chromatin to drive oncogenesis
M Karimzadeh, C Arlidge, A Rostami, M Lupien, SV Bratman, ...
Genome biology 24 (142), 2023
Multiscale interactome analysis coupled with off-target drug predictions reveals drug repurposing candidates for human coronavirus disease
M Sugiyama, H Cui, SR Dar'ya, M Karimzadeh, E Rujas, H Maan, S Hayat, ...
Scientific Reports, 2021
Analysis of clonal evolution in colorectal cancer.
DM Graham, M Arseneault, MA Sukhai, L Letourneau, M Karimzadeh, ...
Journal of Clinical Oncology 32 (15_suppl), 3510-3510, 2014
The molecular consequences of androgen activity in the human breast
F Raths, M Karimzadeh, N Ing, A Martinez, Y Qu, TY Lee, B Mulligan, ...
Cell Genomics 3 (3), 2023
To Transformers and Beyond: Large Language Models for the Genome
ME Consens, C Dufault, M Wainberg, D Forster, M Karimzadeh, ...
arXiv preprint arXiv:2311.07621, 2023
Aberration hubs in protein interaction networks highlight actionable targets in cancer
M Karimzadeh, P Jandaghi, AI Papadakis, S Trainor, J Rung, ...
Oncotarget 9 (38), 25166-25180, 2018
Cell–Cell Contact Mediates Gene Expression and Fate Choice of Human Neural Stem/Progenitor Cells
WB McIntyre, M Karimzadeh, Y Riazalhosseini, M Khazaei, MG Fehlings
Cells 11 (11), 1741, 2022
Analytics methods and tools for integration of biomedical data in medicine
L Zhang, M Karimzadeh, M Welch, C McIntosh, B Wang
Artificial Intelligence in Medicine, 113-129, 2021
Semi-automated genome annotation using epigenomic data and Segway
EG Roberts, M Mendez, C Viner, M Karimzadeh, R Chan, R Ancar, ...
bioRxiv, 080382, 2016
Orphan noncoding RNA (oncRNA) liquid biopsy assay is prognostic for survival in patients with triple-negative breast cancer (TNBC) and residual disease
R Yoder, J Yen, M Karimzadeh, JM Staley, I Fernandez, AC Heinrich, ...
Cancer Research 84 (6_Supplement), 5215-5215, 2024
Beyond detection: AI-based classification of breast cancer invasiveness using cell-free orphan non-coding RNAs
M Karimzadeh, TB Cavazos, NC Chen, NK Tbeileh, D Siegel, ...
Cancer Research 84 (6_Supplement), 3678-3678, 2024
Deep generative AI models analyzing circulating orphan non-coding RNAs enable accurate detection of early-stage non-small cell lung cancer
M Karimzadeh, A Momen-Roknabadi, TB Cavazos, Y Fang, NC Chen, ...
medRxiv, 2024.04. 09.24304531, 2024
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