Reshef Lab

Brigham and Women's Hospital | Harvard Medical School | Broad Institute of MIT and Harvard

We develop and apply machine learning and statistical methods to quantitatively characterize autoimmunity.

We are looking for students and postdocs with backgrounds in machine learning, statistics, genomics, or immunology. If you're interested, contact us with your CV and a description of your interests.

People

Yakir Reshef, MD, PhD

Yakir is a rheumatologist and a computer scientist. He completed a BA in mathematics at Harvard College, a Fulbright Fellowship in probability theory at the Weizmann Institute of Science, a PhD in computer science at Harvard University, and an MD at Harvard Medical School. He completed residency in internal medicine and fellowship training in rheumatology at Brigham and Women's Hospital, where he currently sees patients as a practicing rheumatologist. Yakir likes playing the violin, hiking, reading fiction, and trying to explain complicated things to his kids.

Publications

Selected publications. For complete list, see Google Scholar.

Powerful and accurate case-control analysis of spatial molecular data

Y Reshef^#, L Sood, M Curtis, L Rumker, D Stein, M Palshikar, S Nayar, A Filer, AH Jonsson, I Korsunsky, S Raychaudhuri^#

^# co-corresponding

Nature Methods 2026 (in press)

pre-print code

Co-varying neighborhood analysis identifies cell populations associated with phenotypes of interest from single-cell transcriptomics

[Y Reshef, L Rumker], J Kang, A Nathan, I Korsunsky, S Asgari, M Murray, DB Moody, S Raychaudhuri

[...] equal contribution

Nature Biotechnology 2021

paper talk code - py code - R

Detecting genome-wide directional effects of transcription factor binding on polygenic disease risk

Y Reshef^#, H Finucane, D Kelley, A Gusev, D Kotliar, J Ulirsch, F Hormozdiari, J Nasser, L OConnor, B van de Geijn, P Loh, S Grossman, G Bhatia, S Gazal, P Francesco Palamara, L Pinello, N Patterson, R Adams, A Price^#

^# co-corresponding

Nature Genetics 2018

paper talk code

Contact

1stinitiallastname at broadinstitute dot org

Reshef Lab
Veritas Science Center, Harvard Medical School
77 Avenue Louis Pasteur
Boston, MA 02115

Prospective students and postdocs: please write to the email address above with your CV and a description of your interests.