Bioinformatics and Systems Biology Graduate Students
Ammal Abbasi
Program: Bioinformatics and Systems Biology
Fatemeh Amrollahi
Program: Bioinformatics and Systems Biology with a Specialization in Biomedical Informatics
Erick Armingol
Program: Bioinformatics and Systems Biology
Advisor(s): Nathan E. Lewis
Research Interests: Metabolic modeling and multicellular interactions to predict phenotypes
Degrees:
B.S., Molecular Biotechnology, Universidad de Chile, 2013
Engineer in Molecular Biotechnology, Universidad de Chile, 2015
Special Funding/Awards:
2018-22 Becas Chile - CONICYT (Chilean Government Scholarship)
2018-22 Fulbright Scholarship
George Armstrong
Program: Bioinformatics and Systems Biology
Anthony Aylward
Program: Bioinformatics and Systems Biology
Degrees:
B.S., CCS Mathematics, University of California, Santa Barbara, 2012
Special Funding/Awards:
2013-15 Trainee on NIH Training Grant in Bioinformatics
Hratch Baghdassarian
Program: Bioinformatics and Systems Biology
Advisor(s): Nathan E. Lewis
Research Interests: Mammalian resource allocation; Genome-scale modeling; Intercellular interactions
Degrees:
B.S., Bioengineering, University of California, Berkeley, 2017
B.S., Economics, University of California, Berkeley, 2017
Special Funding/Awards:
2018-20 Trainee on NIH Training Grant in Bioinformatics
Metin Balaban
Program: Bioinformatics and Systems Biology
Advisor(s): Siavash Mirarab
Research Interests: Phylogenetics, Phylogenomics, Comparative Genomics, Microbiome Analysis
Degrees:
B.S., Computer Engineering, Middle East Technical University, 2015
M.S., Computer Science, Swiss Federal Institute of Technology Lausanne, 2017
Bokan Bao
Program: Bioinformatics and Systems Biology
Arjana Begzati
Program: Bioinformatics and Systems Biology
Research Interests: Metabolomics
Degrees:
B.A., Molecular and Cell Biology, University of California, Berkeley, 2019
Lauryn Bruce
Program: Bioinformatics and Systems Biology with a Specialization in Biomedical Informatics
Special Funding/Awards:
2020-21 Trainee on National Library of Medicine (NLM) Training Grant Fellowship Program
Andrey Bzikadze
Program: Bioinformatics and Systems Biology
Advisor(s): Pavel Pevzner, Melissa Gymrek
Research Interests: Genome assembly, satellite biology, immunoinformatics
Degrees:
B.Sc., Statistical modeling, St Petersburg University, Russia, 2015
M.Sc., Computational Stochastics and Statistical Models, St Petersburg University, Russia, 2015
Andrea Castro
Program: Bioinformatics and Systems Biology with a Specialization in Biomedical Informatics
Advisor(s): Hannah Carter
Research Interests: Artificial intelligence for precision medicine and drug discovery
Degrees:
B.S., Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, 2017
Minor, Bioinformatics, University of California, Los Angeles, 2017
Special Funding/Awards:
2018-2021 Trainee on National Library of Medicine (NLM) Training Grant Fellowship Program
2017-2018 GEM PhD Engineering Fellowship
2017 Intel Scholar
Owen Chapman
Advisor(s): Jill Mesirov
Degrees:
B.A., Computer Science, Pomona College, 2017
Special Funding/Awards:
2017-20 Trainee on National Library of Medicine (NLM) Training Grant Fellowship Program
Chien-Ju Chen
Program: Bioinformatics and Systems Biology
Candace Clark
Program: Bioinformatics and Systems Biology
Degrees:
B.A., Berea College 2015
M.S., Microbiology San Francisco State University 2021
Special Funding/Awards:
The Research Initiative for Scientific Enhancement (RISE) Program
Michael Cuoco
Program: Bioinformatics and Systems Biology
Research Interests: Single-cell functional genomics
Degrees:
B.S., Cellular and Molecular Biology, Trinity College, 2016
Minor, Models and Data
Special Funding/Awards:
2020-21 Trainee on NIH Training Grant in Bioinformatics
Nathaniel Delos Santos
Program: Bioinformatics and Systems Biology with a Specialization in Biomedical Informatics
Advisor(s): Christopher Benner
Research Interests: Transcriptional regulation in immune response, specializing in motif analysis.
Degrees:
B.S., Bioengineering (Biotechnology), University of California, San Diego, 2014
Special Funding/Awards:
2016-19 Trainee on National Library of Medicine (NLM) Training Grant Fellowship Program
2016-20 Katzin Prize Scholar
Xiaomi Du
Program: Bioinformatics and Systems Biology
Degrees:
B.S., Biology, Caltech, 2016
Special Funding/Awards:
2019-20 Trainee on NIH Training Grant in Bioinformatics
Lily Francus
Program: Bioinformatics and Systems Biology
Special Funding/Awards:
2020-21 Trainee on NIH Training Grant in Bioinformatics
Karla P. Godinez-Macias
Program: Bioinformatics and Systems Biology
Advisor(s): Elizabeth Winzeler
Degrees:
B.S., Computer Science, Universidad Autónoma de Baja California, 2016
M.S., Bioinformatics, The University of Texas at El Paso, 2019
Edahí González-Avalos
Program: Bioinformatics and Systems Biology
Advisor(s): Anjana Rao
Research Interests: Machine learning applied to gene expression prediction tasks
Degrees:
B.S., Genomic Sciences, Universidad Nacional Autónoma de México, 2016
Special Funding/Awards:
2016-2021 UC-MEXUS/CONACyT Doctorate Fellowship
Caitlin Guccione
Program: Bioinformatics and Systems Biology
Advisor(s): Kit Curtius, Rob Knight
Degrees:
B.S., Applied Mathematics, University of Rhode Island
B.A., Computer Science, University of Rhode Island
M.S., Applied Mathematics, University of Rhode Island
Special Funding/Awards:
2020-21 Trainee on NIH Training Grant in Bioinformatics
Carlos Guzman
Program: Bioinformatics and Systems Biology
Advisor(s): Sven Heinz, Christopher Benner
Research Interests: Gene regulation, enhancer biology, chromatin regulation
Degrees:
B.S., Biology, University of Texas-Pan American, 2013
M.S., Biology, University of Texas-Pan American, 2015
Special Funding/Awards:
2017-19 Trainee on NIH Training Grant in Bioinformatics
Sloan Scholars Fellowship
Competitive EDGE Fellowship
2019 Ford Foundation Predoctoral Fellowship
Daniel Hakim
Program: Bioinformatics and Systems Biology
Special Funding/Awards:
2018-20 Trainee on NIH Training Grant in Bioinformatics
Jennifer Havens
Program: Bioinformatics and Systems Biology
Advisor(s): Joel Wertheim
Research Interests: Virus evolution and phylogenetics, molecular epidemiology
Degrees:
B.S., Mathematical and Computational Biology, Harvey Mudd College, 2018
Ryan Hillary
Program: Bioinformatics and Systems Biology
Advisor(s): Christopher Benner
Research Interests: Transcription Initiation and Regulation, Enhancer Biology, Gene Regulation
Degrees:
B.S., Bioinformatics, Brigham Young University, 2014
Jason Hyun
Program: Bioinformatics and Systems Biology
Advisor(s): Bernhard Palsson
Research Interests: Microbial pan-genomes, antimicrobial resistance
Degrees:
B.S., Chemical-Biological Engineering, Massachusetts Institute of Technology, 2017
Special Funding/Awards:
2017-20 Trainee on NIH Training Grant in Bioinformatics
Pratibha Jagannatha
Program: Bioinformatics and Systems Biology
Special Funding/Awards:
2019-21 Trainee on NIH Training Grant in Bioinformatics
Jeff Jaureguy
Program: Bioinformatics and Systems Biology
Special Funding/Awards:
2020-21 Trainee on NIH Training Grant in Bioinformatics
Bojing Jia
Program: Bioinformatics and Systems Biology
Advisor(s): Bing Ren, Albert Hsiao
Research Interests: Spatial transcriptomics, computer vision
Degrees:
B.Sc., Quantitative Biology, McGill University, 2015
Adam Jussila
Program: Bioinformatics and Systems Biology
Azhar Khandekar
Program: Bioinformatics and Systems Biology
Degrees:
B.S., Biochemistry, University of Washington, 2016
Special Funding/Awards:
National Cancer Institute's Cancer Research Training Award
Adam Klie
Program: Bioinformatics and Systems Biology
Advisor(s): Hannah Carter
Degrees:
B.S., Bioengineering: Bioinformatics, University of California, San Diego, 2017
Special Funding/Awards:
2019-21 Trainee on NIH Training Grant in Bioinformatics
Emily Kobayashi
Program: Bioinformatics and Systems Biology
Degrees:
B.S., Bioinformatics, University of California, Santa Cruz, 2019
Special Funding/Awards:
2019-21 Trainee on NIH Training Grant in Bioinformatics
Eric Kofman
Program: Bioinformatics and Systems Biology
Special Funding/Awards:
2019-21 Trainee on NIH Training Grant in Bioinformatics
Jonathan Lam
Program: Bioinformatics and Systems Biology with a Specialization in Biomedical Informatics
Special Funding/Awards:
2020-21 Trainee on National Library of Medicine (NLM) Training Grant Fellowship Program
Zhenzhi Li
Program: Bioinformatics and Systems Biology
Miin Lin
Program: Bioinformatics and Systems Biology
Special Funding/Awards:
2015-17 Trainee on NIH Training Grant in Bioinformatics
Jens Luebeck
Program: Bioinformatics and Systems Biology
Advisor(s): Vineet Bafna
Research Interests: Cancer biology and genomic structural variation
Degrees:
B.S, Applied Computational & Mathematical Sciences, University of Washington, 2015
M.S., Computer Science, University of California San Diego, 2019
Special Funding/Awards:
2015-17 Trainee on NIH Training Grant in Bioinformatics
Clarence Mah
Program: Bioinformatics and Systems Biology
Advisor(s): Hannah Carter, Gene Yeo
Research Interests: Transcriptomics, RNA regulation, RNA localization, reproducible research
Degrees:
B.S., Bioengineering: Bioinformatics, University of California, San Diego 2016
Special Funding/Awards:
NSF Graduate Research Fellowship Program
UCSD Genetics Training Program
Arya Massarat
Program: Bioinformatics and Systems Biology
Degrees:
B.S., Mathematical and Computational Biology, Harvey Mudd College, 2020
Special Funding/Awards:
2020-21 Trainee on NIH Training Grant in Bioinformatics
Robert Morey
Special Funding/Awards:
2017-20 Trainee on NIH Training Grant in Bioinformatics
Hannah Mummey
Program: Bioinformatics and Systems Biology
Degrees:
B.S., Biochemistry, Wellesley College, 2020
Special Funding/Awards:
2020-21 Trainee on NIH Training Grant in Bioinformatics
Daniela Nachmanson
Degrees:
B.S., Biochemistry, University of Washington, 2015
Special Funding/Awards:
2018-21 TRDRP (Tobacco-Related Disease Research Program) Predoctoral Research Fellowship
Jacklyn Newsome
Program: Bioinformatics and Systems Biology
Jennifer Nguyen
Program: Bioinformatics and Systems Biology
Ryan O'Neil
Program: Bioinformatics and Systems Biology
Advisor(s): Joseph Ecker
Special Funding/Awards:
2012-13 Trainee on NIH Training Grant in Bioinformatics
Adam Officer
Program: Bioinformatics and Systems Biology
Kivilicim Ozturk
Program: Bioinformatics and Systems Biology
Advisor(s): Hannah Carter
Degrees:
B.S., Biological Sciences and Bioengineering, Sabanci University
M.S., Computer Science and Engineering, Sabanci University
Special Funding/Awards:
2017-18 SDCSB Systems Biology Training Grant
Jonathan Pekar
Program: Bioinformatics and Systems Biology
Daniela Perry
Program: Bioinformatics and Systems Biology
Degrees:
B.S., Statistics, Cornell University
Anh Pham
Program: Bioinformatics and Systems Biology
Timothy Pham
Program: Bioinformatics and Systems Biology with a Specialization in Biomedical Informatics
Special Funding/Awards:
2020-21 Trainee on National Library of Medicine (NLM) Training Grant Fellowship Program
Timofey Prodanov
Yue Qin
Program: Bioinformatics and Systems Biology
Degrees:
B.S., Bioinformatics, University of California, San Diego, 2017
Eleonora Rachtman
Program: Bioinformatics and Systems Biology
Michelle Ragsac
Program: Bioinformatics and Systems Biology
Advisor(s): Emma Farley
Research Interests: Single cell transcriptomics and regulatory genomics of Ciona intestinalis embryogenesis
Degrees:
B.S., Bioengineering: Bioinformatics, University of California, San Diego, 2017
Gibraan Rahman
Program: Bioinformatics and Systems Biology
Joaquin Reyna
Program: Bioinformatics and Systems Biology
Degrees:
Bioengineering: Bioinformatics Bsc
Special Funding/Awards:
2018-20 Trainee on NIH Training Grant in Bioinformatics
Samuel Roth
Program: Bioinformatics and Systems Biology
Advisor(s): Christopher Benner
Research Interests: Genomics, Epigenetics, Transcriptional Regulation
Degrees:
B.A., Biology, Computer Science, Wesleyan University, 2013
M.A., Biology, Wesleyan University, 2014
Special Funding/Awards:
2014-16 Trainee on NIH Training Grant in Bioinformatics
Charles-Alexandre Roy
Program: Bioinformatics and Systems Biology
Advisor(s): Jonathan Sebat
Degrees:
B.S., Bioengineering, University of Maine, 2019
Minor, Chemistry, University of Maine, 2019
Minor, Cell and Molecular Biology, University of Maine, 2019
Minor, Nanotechnology, University of Maine, 2019
Minor, Microbiology, University of Maine, 2019
Dominic Schenone
Program: Bioinformatics and Systems Biology
Degrees:
B.S, Bioengineering, University of California, Santa Cruz, 2017
Isaac Shamie
Program: Bioinformatics and Systems Biology
Degrees:
B.S., Biology, Carnegie Mellon University, 2014
Minor, Computational Neuroscience, Carnegie Mellon University, 2014
Special Funding/Awards:
2016-18 Trainee on NIH Training Grant in Bioinformatics
Omar Shanta
Program: Bioinformatics and Systems Biology
Advisor(s): Jonathan Sebat
Degrees:
B.S., Electrical Engineering, University of California, Irvine, 2015
M.S., Electrical and Computer Engineering, University of California, San Diego, 2019
Severine Soltani
Program: Bioinformatics and Systems Biology with a Specialization in Biomedical Informatics
Degrees:
B.S., Cognitive Science w/ Specialization in Machine Learning and Neural Computation, University of California, San Diego, 2020
Minor, Mathematics, University of California, San Diego, 2020
Jesse Solvason
Program: Bioinformatics and Systems Biology
Advisor(s): Emma Farley
Research Interests: Synthetic Biology, Transcriptional Regulation, Sequencing Based High-Throughput Screens
Degrees:
B.S. Molecular, Cellular, Developmental Biology; Minor in Chemistry
James Sorrentino
Program: Bioinformatics and Systems Biology
Advisor(s): Nathan E. Lewis, Jeffrey Esko
Research Interests: Proteomics, Glycoproteomics, MRSA, Sepsis
Degrees:
B.S., Bioengineering with Bioinformatics minor, University of California, Santa Cruz, 2017
Special Funding/Awards:
2017-20 Trainee on NIH Training Grant in Bioinformatics
James Talwar
Program: Bioinformatics and Systems Biology
Juan Tibocha Bonilla
Program: Bioinformatics and Systems Biology
Xingzhao Wen
Program: Bioinformatics and Systems Biology
Advisor(s): Sheng Zhong
Research Interests: RNA interactome, Genome organization
Degrees:
B.S., Biomedical Engineering, Southeast University, China, 2018
Alexander Wenzel
Program: Bioinformatics and Systems Biology with a Specialization in Biomedical Informatics
Advisor(s): Jill Mesirov
Research Interests: Bulk and single cell RNA-seq algorithms development and analysis
Degrees:
B.S., Computer Science, Northwestern University, 2017
Special Funding/Awards:
Ruth L. Kirschstein Predoctoral Individual National Research Service Award (F31)
2017-20 Trainee on National Library of Medicine (NLM) Training Grant Fellowship Program
Cancer Cell Map Initiative: Cancer Systems Biology Training Program Award
Cynthia Wu
Program: Bioinformatics and Systems Biology
Advisor(s): Melissa Gymrek, Alon Goren
Degrees:
B.S., Bioinformatics, University of California, San Diego, 2017
Minor, Computer Science, University of California, San Diego, 2017
M.S., Computer Science, University of California, San Diego, 2020
Nancy Yuan
Program: Bioinformatics and Systems Biology with a Specialization in Biomedical Informatics
Advisor(s): Albert Hsiao
Degrees:
M.S., Biology, UC San Diego, 2017
B.S., Biology, University of Texas at Austin, 2015
B.A., History, University of Texas at Austin, 2014
Special Funding/Awards:
2018-21 Trainee on National Library of Medicine (NLM) Training Grant Fellowship Program
Chao Zhang
Lina Zheng
Program: Bioinformatics and Systems Biology
Degrees:
B.S. in Pharmaceutical Science
M.S. in Statistics/Biostatistics
Special Funding/Awards:
2017-19 Trainee on NIH Training Grant in Bioinformatics
Jingtian Zhou
Program: Bioinformatics and Systems Biology
Advisor(s): Joseph Ecker
Research Interests: Single-cell epigenomics
Degrees:
B.S., Pharmaceutical Sciences, Tsinghua University, 2016
Jessica Zhou
Program: Bioinformatics and Systems Biology
Degrees:
B.S., Biomedical Engineering, University of Southern California, 2017
Special Funding/Awards:
2017-18 Trainee on NIH Training Grant in Bioinformatics
2019-20 Fulbright Study/Research Award