UW Bio UW ChemE eScience AICS
Lab Affiliations: NU CSB NU NICO UW CMB

Principal Investigator

Neda Bagheri, Ph.D.

email | abbreviated cv

Associate Professor of Biology
Associate Professor of Chemical Engineering
Washington Research Foundation Distinguished Investigator
University of Washington

Senior Advisor of Modeling, Dissemination, & Alliances
Allen Institute for Cell Science

Adjunct Associate Professor of Chemical & Biological Engineering
Northwestern University


Mailing Address
University of Washington, Life Sciences Building 561
W Stevens Way NE
Seattle, WA 98195

Assistant Scientific Director

Dr. Jessica S. Yu

Consultant at Allen Institute for Cell Science

email

B.S. Chemical Engineering, Northwestern University
M.S. Biotechnology, Northwestern University
Ph.D. Chemical and Biological Engineering, Northwestern University

Thesis: Multi-Scale, Multi-Class Agent-Based Models of Biological Systems

Graduate Students

Narasimhan Balakrishnan

Ph.D. candidate, Chemical & Biological Engineering

email

B.S. Chemical Engineering, Indian Institute of Technology, Madras
Joined September 2015

Research Keywordscircadian rhythms, multiscale modeling, control theory
AcknowledgementsBiotechnology Training Program Cluster Award

Slava S. Butkovich

email

B.S. Chemical Engineering, California Institute of Technology
Joined September 2017

Research Keywordsdata science, protein engineering
AcknowledgementsCabell Fellowship
Biotechnology Training Program Fellowship
CollaboratorsD. Tullman-Ercek

Computation Lead

Jason Y. Cain

Ph.D. candidate, Chemical Engineering

email

B.S. Chemical Engineering, Northeastern University
M.S. Chemical & Biological Engineering, Northwestern University
Joined September 2017

Research Keywordsagent-based models, hypoxia, angiogenesis
AcknowledgementsNorthwestern University Data Science Fellowship
Biotechnology Training Program Fellowship

Operations Lead

Kate E. Dray

Ph.D. candidate, Chemical & Biological Engineering

email

B.S. Chemical Engineering, University of Kentucky
Joined September 2017

Research KeywordsODEs, synthetic biology, gene expression dynamics
AcknowledgementsNSF Graduate Research Fellowship
Biotechnology Training Program Cluster Award
CollaboratorsJ. N. Leonard

Sophia K. Jannetty

email

B.A. Biology, Williams College
Post Baccalaureate Computer Science Certificate, Tufts University
Joined September 2020

Research Keywordsbiological network analysis, data science, electrophysiology

Joshua I. Levy

Ph.D. candidate, Engineering Sciences & Applied Mathematics

email

B.S. Applied Mathematics and B.S. Chemistry, Tufts University
M.S. Mathematical Modelling and Scientific Computing, University of Oxford
Joined September 2016

Research Keywordssensory navigation, circadian dynamics
AcknowledgementsCabell Fellowship
CollaboratorsW. L. Kath | M. Gallio

Alexis N. Prybutok

Ph.D. candidate, Chemical & Biological Engineering

email

B.S. Chemical Engineering and B.S. Biochemistry, University of Texas at Austin
Joined September 2016

Research Keywordsagent-based models, chimeric antigen receptor (CAR) T-cell therapies, solid tumor dynamics
AcknowledgementsNSF Graduate Research Fellowship
CollaboratorsJ. N. Leonard

Undergraduate Students

Antonio Hazboun

email

Joined January 2019

Alumni

Graduate Students


Dr. Sebastian M. Bernasek (September 2014 — June 2019)

Ph.D. Chemical & Biological Engineering, Northwestern University
Thesis: Quantitative analysis of cell fate decisions

Dr. Justin D. Finkle (June 2013 — November 2018)

Bioinformatics Scientist at Tempus
Ph.D. Biological Sciences, Northwestern University
Thesis: Regulatory insights from gene expression dynamics
AcknowledgementsBiotechnology Training Program Fellowship
Nicholson Fellowship

Dr. Joseph J. Muldoon (June 2014 — September 2020)

Postdoc at UCSF (Eyquem lab and Roybal lab)
Ph.D. Biological Sciences, Northwestern University
Thesis: Model-driven elucidation of synthetic and immune signaling mechanisms
AcknowledgementsBiotechnology Training Program Cluster Award

Dr. Jia J. Wu (June 2013 — December 2018)

Computational Biologist at Novartis
Ph.D. Biological Sciences, Northwestern University
Thesis: Data-driven strategies for optimization of human megakaryocyte differentiation
AcknowledgementsBiotechnology Training Program Cluster Award
National Science Foundation GK-12 Fellowship
Ruth Kirchstein National Research Service Award

Dr. Albert Y. Xue (September 2012 — August 2018)

Data Scientist at Uptake
Ph.D. Chemical & Biological Engineering, Northwestern University
Thesis: Finding the needle in the haystack: Applying data science to address biological questions
AcknowledgementsBiotechnology Training Program Cluster Award
NICO Data Science Research Support

M. Kasim Fassia (January 2013 — June 2016)

Medical student at Michigan State University
M.S. in Biomedical Engineering, Northwestern University

Zeynab Mousavikhamene (September 2018 — December 2020)

B.S. Chemical Engineering, Amirkabir University of Technology
M.S. Chemical Engineering, Sharif University of Technology
AcknowledgementsMurphy Fellowship

Aaron D. Oppenheimer (January 2013 — June 2015)

Laboratory manager at Francis W. Parker School
M.S. in Chemical & Biological Engineering, Northwestern University
AcknowledgementsNational Science Foundation GK-12 Fellowship

Postdocs


Dr. Tyrone J. Yacoub (September 2015 — September 2017)

Bioinformatics scientist at CB Therapeutics
Ph.D. Chemical & Biological Engineering, Northwestern University
AcknowledgementsHartwell Foundation Postdoctoral Fellowship

Dr. Mark F. Ciaccio (September 2012 — June 2015)

Senior biology data scientist at AbbVie
Ph.D. Cellular and Molecular Physiology, University of Chicago
AcknowledgementsNorthwestern University Physical Science-Oncology Center
Hartwell Foundation Postdoctoral Fellowship

Undergraduate Students


Eduardo Muñoz (June 2018 — August 2018)

Student at University of California Irvine

Weipeng Zhang (July 2017 — June 2018)

Grad student at Georgetown University
B.S. in Chemical & Biological Engineering, Northwestern University

Maureen Ferries (September 2012 — March 2013)

Process automation engineer at Dow AgroSciences
B.S. in Chemical & Biological Engineering, Northwestern University

Click here for a list of our collaborators.