Jasmin Fisher

 

Ph.D. Weizmann Institute of Science, 2003

Senior Researcher at Microsoft Research Cambridge in the Programming Principles and Tools group

Research Group Leader at the Department of Biochemistry and Cambridge Systems Biology Centre in University of Cambridge

 

Executable Biology

Our research focuses on the design and analysis of executable computer algorithms describing biological phenomena. We call this approach Executable Biology. These kinds of models hold great promise for new discoveries in a wide variety of biological systems. Once an executable model has been built of a particular system, it can be used to get a global dynamic picture of how the system responds to various perturbations. In addition, preliminary studies can be quickly performed using executable models, saving valuable laboratory time and resources for only the most promising avenues.

Research Overview

Our work is focused on two main directions:  

(1) The use of different formalisms to create executable models of biological phenomena, aiming to gain new insights into the molecular mechanisms underlying the fundamental question of cell fate determination (or in other words - how cells make the decision to develop into a particular cell type) during the course of normal development (e.g., our work on C. elegans vulval development, blood stem cells development, regulation of cell-cycle quiescence in C. cereviciae), and in disease (e.g., stem cell differentiation in mammalian epidermis, EGFR/Notch/Wnt crosstalk in cancer cells, regulation of leukaemic blood stem cells).

(2) The development of tools and design of algorithms that are specifically tailored for modelling biological systems (e.g., bounded-asynchrony). We put a lot of emphasis on constructing user-friendly tools (i.e., visual, flexible), in order to facilitate the integration of such computational tools as mainstream techniques in biological research (e.g., Bio Model Analyzer).

Group Members

  • Ben Hall (post-doc, MSRC)
  • Anthony Gitter (post-doc, MSR-NE)
  • Steven Woodhouse (Ph.D. student, University of Cambridge, joint with Bertie Gottgens)
  • Ali Sinan Koksal (Ph.D. student, UC Berkeley)
  • Lior Soday (Part II student, University of Cambridge)  
  • Jorge Buendia (intern, MSRC)
  • Matthew Clarke (PhD rotation student, University of Cambridge)
  • Chee Yee Lim (PhD rotation student, University of Cambridge)
  • David Benque (BMA design, MSRC)
  • Gavin Smyth (BMA development, MSRC)
  • Sita Narayan-Dinanauth (BMA outreach, MSRC)
  • Caroline Dahl (BMA development, MSRC)
  • Alex Hajnal (Visiting Researcher)

Former Post-docs & Students

  • Sari Bacall (summer internship, Weizmann Institute of Science, 2003)
  • Naamah Swerdlin (M.Sc. rotation, Weizmann Institute of Science, 2004)
  • Dvir Netanely (M.Sc. rotation, Weizmann Institute of Science, 2004)
  • Susmit Jha (summer internship, EPFL, 2005)
  • Marc Schaub (M.Sc. student, EPFL, 2005-2006)
  • Luvish Satija (summer internship, EPFL, 2006)
  • Vaibahav Rajan (semester project, EPFL, 2006)
  • Andrei Popescu (summer internship, joint with Byron Cook, MSRC, 2008)
  • Dennis Wang (M.Sc. student, Cambridge University, 2008)
  • Christopher Doman (Part II project, Cambridge University, 2007-2008)
  • Antje Beyer (M.Sc. student, Cambridge University, 2008)
  • Maria Mateescu (Ph.D. student, EPFL, joint with Tom Henzinger, 2006-2009)
  • Luke Church (Ph.D. student, Cambridge University, 2007-2009)
  • Avital Sadot (Post-doc, joint with David Harel, 2007-2010)
  • Garth Ilsley (Ph.D. student, EBI, Cambridge, 2007-2010)
  • Elzbieta Krepska (Ph.D. student, MSRC internship 2010, joint with Byron Cook)
  • Peter Ackermann (M.Sc. student, Cambridge University 2011, joint with Steve Oliver)
  • Jishnu Das (Ph.D. student, Cornell University, MSRC internship 2011)
  • Nicola Bonzanni (Ph.D. student, VU University Amsterdam)
  • Qinsi Wang (Ph.D. student, Carnegie Mellon University, MSRC internship 2011)
  • Lucinda Moore (M.Sc. student, Cambridge University 2012, joint with Bertie Gottgens)
  • Ryan Chuang (M.Sc. student, Cambridge University 2012, joint with Bertie Gottgens)
  • Antje Beyer (Ph.D. student, Cambridge University 2009-2012)
  • Curtis Madsen (Ph.D. student, University of Utah, MSRC internship 2011)
  • Garvit Juniwal (Ph.D. student, UC Berkeley, MSRC internship 2013)
  • Ariel Feiglin (Ph.D. student, Bar-Ilan University, joint with Yanay Ofran)
  • Yulia Demyanova (Ph.D. student, TU Vienna, MSRC internship 2013)

Collaborations

Events

In the press

Jobs

If you are seeking a postdoctoral, PhD or MSc position and have an interest in joining our lab, please send your CV including a statement of interests to jasmin.fisher ''at'' microsoft.com

Contact

Dr. Jasmin Fisher
Microsoft Research Cambridge
21 Station Road
Cambridge CB1 2FB, UK
Phone: +44-1223 479 947
Fax: +44-1223 479 999
Email: jasmin.fisher"at"microsoft.com