Computational & Systems Biology Program
The Dana Pe'er Lab
Research

The Pe’er lab combines single cell technologies, genomic datasets and machine learning algorithms to address fundamental questions in biomedical science. Empowered by recent breakthrough technologies like massive parallel single cell RNA-sequencing, we ask questions such as: How do multi-cellular organisms develop from a single cell, resulting in the vast diversity of progenitor and terminal cell types? How does a cell’s regulatory circuit control the dynamics of signal processing and how do these circuits rewire over the course of development? How does an ensemble of cells function together to execute a multi-cellular response, such as an immune response to pathogen or cancer? We will also address more medically oriented questions such as: How do regulatory circuits go awry in disease? What is the consequence of intra-tumor heterogeneity? Can we characterize the tumor immune eco-system to gain a better understanding of when or why immunotherapy works or does not work? A key goal is to use this characterization of the tumor immune eco-system to personalize immunotherapy.

Featured News
Publications
The emergent landscape of the mouse gut endoderm at single-cell resolution. Nowotschin S, Setty M, Kuo YY, Liu V, Garg V, Sharma R, Simon CS, Saiz N, Gardner R, Boutet SC, Church DM, Hoodless PA, Hadjantonakis AK, Pe’er D. Nature. 2019 May;569(7756):361-367. doi: 10.1038/s41586-019-1127-1. Epub 2019 Apr 8. PMID: 30959515
Characterization of cell fate probabilities in single-cell data with Palantir. Setty M, Kiseliovas V, Levine J, Gayoso A, Mazutis L, Pe’er D. Nat Biotechnol. 2019 Apr;37(4):451-460. doi: 10.1038/s41587-019-0068-4. PMID: 30899105.
Single-cell map of diverse immune phenotypes in the breast tumor microenvironment. Azizi E, Carr AJ, Plitas G, Cornish AE, Konopacki C, Prabhakaran S, Nainys J, Wu K, Kiseliovas V, Setty M, Choi K, Fromme RM, Dao P, McKenney PT, Wasti RC, Kadaveru K, Mazutis L, Rudensky AY, Pe’er D. Cell. 2018 Aug 23;174(5):1293-1308.e36. doi: 10.1016/j.cell.2018.05.060. PMID: 29961579
People

Dana Pe'er, PhD
Chair, Computational and Systems Biology Program, SKI; Scientific Director, Alan and Sandra Gerry Metastasis and Tumor Ecosystems Center
- Computational Biologist Dana Pe’er combines single cell technologies, genomic datasets and machine learning techniques to address fundamental questions addressing regulatory cell circuits, cellular development, tumor immune eco-system, genotype to phenotype relations and precision medicine.
- PhD, Hebrew University, Jerusalem Israel
- Kingl2@mskcc.org
- Email Address
Members

- Residency, Cornell University (Internal Medicine)
- MD, PhD, Columbia University
- BS, Stanford University

- PhD, University of Paris – XI / Institute Gustave Roussy, France (Oncology)
- BS, Évry Val d’Essonne University, France (Cellular Biology and Physiology)

- MS, Northeastern University (Biotechnology)
- BE, Maharshi Dayanand University (Biotechnology)

- PhD in Computational Biology, Cornell University, Ithaca NY USA
- Minor: Computer Science (Concentration: Machine learning)
- BSc in Biochemistry, The Chinese University of Hong Kong, Hong Kong

- MLA, Harvard (Information Technology)
- BS, Duke University (Biomedical Engineering & Electrical Engineering)

- BS, Peking University (Physics)
- PhD, Harvard University (Systems Biology)

- PhD, University of Chicago (Biophysical Sciences)
- BA, Harvard University (Physics)

- BS, Technion - Israel Institute of Technology (Electrical Engineering)
- BS, Technion - Israel Institute of Technology (Physics)

- PhD, University of Cambridge, UK (Medical Sciences)
- MSc, University of York, UK (Computational Biology and Bioinformatics)
- BSc, Universidad Nacional Autónoma de México, Mexico (Biomedicine)

- BS, Johns Hopkins University (Molecular & Cellular Biology)

- MS, Vilnius University (Nanobiotechnology)
- BS, Vilnius University (Bioengineering)

- PhD, Strasbourg University (Biological Chemistry)
- BS, Vilnius University

- MS, Massachusetts Institute of Technology (Computer Science)
- MS, Massachusetts Institute of Technology (Design Computation)
- BArch, Cornell University

- PhD, New York University (Developmental Genetics)
- BS, McGill University (Biology)


- MS, Massachusetts Institute of Technology (Computer Science)
- BS, Massachusetts Institute of Technology (Mathematics)
- PhD, Icahn School of Medicine at Mount Sinai (Genetics and Genomic Sciences)
- BSc, Virginia Tech (Biology, Microbiology/Immunology Concentration)


- PhD, Francis Crick Institute/Imperial College London (Computational Biology)
- MSc, University of Warwick (Mathematics of Complex Systems)
- MMath, University of Warwick (Mathematics)

- MS, University of Edinburgh
- BS, Zhejiang University

- MS, Columbia University (Biotechnology)
- BSc, University of Wisconsin (Applied Science- Biotechnology)
- PhD, Carnegie Mellon University (Computational Biology)
- MS, Carnegie Mellon University (Machine Learning)
- MS, Tsinghua University (Control Science and Engineering)
- BEng, Tsinghua University (Automation)

Thoracic Oncology Fellow
Administrative Assistant II

Graduate Student

Assistant Lab Member and Director of SCRI

Research Assistant

Postdoctoral Researcher

Manager, Computational Biologist

Postdoctoral Researcher

Postdoctoral Researcher

Graduate Student

Postdoctoral Researcher

Postdoctoral Researcher

Assistant to the Chair

Computational Biologist

Senior Research Technician

Outgoing Director of SCRI

Computational Biologist

Senior Program Manager

Principal Investigator

Graduate Student

Postdoctoral Researcher
Postdoctoral Researcher

Visiting Scientist

Postdoctoral Researcher

Graduate Student

Senior Research Technician
Postdoctoral Researcher

- PhD, Princeton University
- MS, Lomonosov Moscow State University

- BS Massachusetts Institute of Technology (Chemical Engineering and Computer Science)




- PhD, Darmouth College (Quantitative Imaging)
- BS, University of Vermont (Biological Physics)

- Residency, Université de Montréal (Internal Medicine and Hematology)
- MD, Université de Montréal

- MS, New York University (Bioinformatics and Systems Biology)
- MS, The Hebrew University (Microbiology)
- BS, The Hebrew University (Biology)

- PhD, University of Basel (Applied Statistics)
- MS, University of Edinburgh (Intelligent Robotics)
- BEng, College of Engineering, Chengannur, Kerala (Computer Engineering)

- PhD, Weill Cornell Graduate School, New York (Systems Biology)
- MS, Columbia University, New York (Computer Science)
- BEng, National Institute of Technology, Karnataka, India (Computer Engineering)

- MS, Vrije Universiteit Amsterdam (Oncology)
- BS, Universiteit van Amsterdam

Lab Alumni

Postdoctoral Research Fellow

Postdoctoral Research Fellow
Visiting Scientist
Student

Graduate Student

Graduate Student


Graduate Student

Student

Research Scholar

Postdoctoral Research Fellow

Research Scholar
Postdoctoral Fellow

Research Associate

Senior Bioinformatics Engineer
Research Technician

Postdoctoral Research Fellow
Senior Administrative Assistant

Research Fellow

Graduate Student

Senior Research Technician

Administrative Assistant
Postdoctoral Fellow
Lab Affilations
Achievements
- 2014 NIH Director’s Pioneer Award
- 2014 ISCB Overton Prize
- 2012 RECOMB 2012 Test of Time Award
- 2010 SU2C AACR Innovator award
- 2009 Packard Fellowship in Science and Engineering
Read more
- 2007 NIH Directors New Innovator Award
- 2005 Runner up for “Breakthrough of the year”, Science Magazine
- 2005 Career Award at the Interface of Science, Burroughs Welcome Fund
Lab News & Events
Upcoming event
Multi-Domain Data Integration: From Observations to Mechanistic Insights using Autoencoders and Causal Inference
This seminar will be conducted by Zoom Webinar.
Open Positions
Bioinformatics Engineer II - Genomics Algorithm Development
Computational Biologist
Senior Research Technician
Get in Touch
-
Lab Head Email
-
Laura King, Assistant to the Chair
-
Dry Lab Phone
-
Wet Lab Phone
Disclosures
Doctors and faculty members often work with pharmaceutical, device, biotechnology, and life sciences companies, and other organizations outside of MSK, to find safe and effective cancer treatments, to improve patient care, and to educate the health care community.
MSK requires doctors and faculty members to report (“disclose”) the relationships and financial interests they have with external entities. As a commitment to transparency with our community, we make that information available to the public.
Dana Pe'er discloses the following relationships and financial interests:
No disclosures meeting criteria for time period
The information published here is for a specific annual disclosure period. There may be differences between information on this and other public sites as a result of different reporting periods and/or the various ways relationships and financial interests are categorized by organizations that publish such data.
This page and data include information for a specific MSK annual disclosure period (January 1, 2019 through disclosure submission in spring 2020). This data reflects interests that may or may not still exist. This data is updated annually.
Learn more about MSK’s COI policies here. For questions regarding MSK’s COI-related policies and procedures, email MSK’s Compliance Office at ecoi@mskcc.org.