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Nadav Brandes, PhD

Assistant Professor, Department of Biochemistry and Molecular Pharmacology

Keywords
Human Genetics, Artificial Intelligence , Large Language Models, Deep Learning, Proteins, Statistical Genetics, Single-Cell Genomics
Summary

My research focuses on harnessing the power of Artificial Intelligence (AI) to understand the human genome and address critical challenges in disease prediction and treatment. I have developed and applied Large Language Models (LLMs) to biological sequences, with a focus on proteins. These deep-learning models help identify disease-causing mutations and can optimize genomic sequences for therapeutic applications. My lab is particularly interested in integrating variant effect predictions into statistical genetics to advance our understanding of rare variants, and pushing the boundaries of AI to predict genetic effects in non-coding regions. Through high-dimensional approaches, we aim to disentangle the specific cellular effects of mutations.

Phone

212-263-0195

Academic office

540 First Avenue, Medical Science Building

3rd Floor, Room 3-117

New York, NY 10016

Lab Website
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PhD from Hebrew University of Jerusalem

UCSF, Jimmie Ye

Brandes, Nadav; Goldman, Grant; Wang, Charlotte H; Ye, Chun Jimmie; Ntranos, Vasilis

Nature genetics. 2023 Sep; 55(9):1512-1522

Brandes, Nadav; Ofer, Dan; Peleg, Yam; Rappoport, Nadav; Linial, Michal

Bioinformatics. 2022 Apr 12; 38(8):2102-2110

Brandes, Nadav; Linial, Nathan; Linial, Michal

Genome biology. 2020 Jul 14; 21(1):173

Ofer, Dan; Brandes, Nadav; Linial, Michal

Computational & structural biotechnology journal. 2021 Feb; 19:1750-1758

Brandes, Nadav; Weissbrod, Omer; Linial, Michal

Genome biology. 2022 Jun 20; 23(1):131

Tsuchida, Connor A; Brandes, Nadav; Bueno, Raymund; Trinidad, Marena; Mazumder, Thomas; Yu, Bingfei; Hwang, Byungjin; Chang, Christopher; Liu, Jamin; Sun, Yang; Hopkins, Caitlin R; Parker, Kevin R; Qi, Yanyan; Hofman, Laura; Satpathy, Ansuman T; Stadtmauer, Edward A; Cate, Jamie H D; Eyquem, Justin; Fraietta, Joseph A; June, Carl H; Chang, Howard Y; Ye, Chun Jimmie; Doudna, Jennifer A

Cell. 2023 Oct 12; 186(21):4567-4582.e20

Brandes, Nadav; Linial, Nathan; Linial, Michal

Scientific reports. 2021 Jul 21; 11(1):14901

Brandes, Nadav; Linial, Nathan; Linial, Michal

Nucleic acids research. 2019 Jul 26; 47(13):6642-6655