Professor Jasmin Fisher

University of Cambridge

University departments
Department of Biochemistry

Position: Professor
Personal home page: http://www.bioc.cam.ac.uk/people/uto/fisher

PubMed journal articles - click here

Professor Jasmin Fisher is pleased to consider applications from prospective PhD students.

Research description

Our group has been pioneering the use of program analysis techniques for the construction and analysis of executable models describing cell fate decisions during development and cancer (e.g., Chronic Myeloid Leukaemia, breast cancer, glioblastoma). These models are essentially computer programs whose behaviour captures aspects of biological phenomena. Over the years, these efforts have demonstrated successfully how the use of formal methods can be beneficial for gaining new biological insights and directing new experimental avenues. Once an executable model has been built, it can be used to get a global dynamic picture of how the system responds to various perturbations. In addition, preliminary studies (in silico) can be quickly performed on a computational model, saving valuable laboratory time and resources for only the most promising avenues. By applying various computational approaches ranging from Boolean/qualitative networks, compositional state-machines, Petri nets, to process calculi, our group devotes itself both to establishing an in-depth understanding of the cell signalling and intercellular communication processes controlling cell fate specification, and to understanding how these processes are orchestrated to establish robust cell fate patterns. By developing methods in model checking and synthesis we have discovered mechanisms of cell fate determination and found new approaches to derive models directly from classical mutation experiments and single-cell gene expression measurements.

Research Programme or Virtual Institute
Fundamental Biology of Cancer
Strategic Resources
CRUK RadNet Cambridge
Methods and technologies
Cell culture
Computational modelling
Gene expression profiling
Genomics
In vivo modelling
Magnetic Resonance Imaging (MRI)
Proteomics
Statistical analysis
Tumour type interests
Brain and central nervous system
Breast
Leukemia
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Recent publications:
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Key publications

Clarke M.A. and Fisher J. Executable Cancer Models: Successes and Challenges. Nature Reviews Cancer, 2020.

Kreuzaler P., Clarke M.A., Brown E.J., Wilson C.H., Kortlever R.M., Piterman N., Littlewood T., Evan G.I. and Fisher J. Heterogeneity of Myc expression in breast cancer exposes pharmacological vulnerabilities revealed through executable mechanistic modelling. Proc Natl Acad Sci U S A 116(44): 22399-22408, 2019.

Silverbush D., Grosskurth S., Wang D., Powell F., Gottgens B., Dry J.R. and Fisher J. Cell-Specific Computational Modeling of the PIM pathway in Acute Myeloid Leukemia. Cancer Research, 77(4), 2017.

Chuang R., Benque D., Cook B., Hall B.A., Ishtiaq S., Piterman N., Taylor A., Vardi M., Koschmieder S., Gottgens B. and Fisher J. Drug Target Optimization in Chronic Myeloid Leukemia Using an Innovative Computational Platform. Nature Scientific Reports, 5:8190, 2015.

Moignard V., Woodhouse S., Haghverdi L., Lilly J, Tanaka Y, Wilkinson A.C, Buettner F., Nishikawa S.I., Piterman N., Kouskoff V., Theis F.J., Fisher J., Gƶttgens B. Decoding the Transcriptional Program for Blood Development from Whole Tissue Single Cell Gene Expression Measurements. Nature Biotechnology, 2015.

Nusser-Stein S., Beyer A., Rimann I., Adamczyk M., Piterman N., Hajnal A., and Fisher J., Cell-Cycle Regulation of Notch Signaling during C. elegans Vulval Development. Molecular Systems Biology, 8:618, 2012.

Fisher J. and Henzinger T.A., Executable Cell Biology. Nature Biotechnology, vol. 25, no. 11, pp. 1239-1249, 2007.