Aaron Evan Boussina
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Education:
Research Interests:
Contact: aeboussina@ucsd.edu
Adam Officer
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BISB Ph.D. Student
Research Interests
Tumor immune microenvironment, Mechanisms of breast cancer progression, Triple-negative breast cancer subtyping and treatment
Education
B.S. in Biochemistry, The University of Washington
Selected Publications
Gopal, Lu, Man, Baur, Rao, Litichevskiy, Papanastasiou, Creech, DeRuff, Mullahoo, Officer, Egri, Davison, Jaffe, Jaffe, A phosphoproteomic signature in endothelial cells predicts vascular toxicity of tyrosine kinase inhibitors used in CML, Blood Advances, 2018 Jul
Horwitz, Koch, Porcu, Oki, Moskowitz, Perez, Myskowski, Officer, Jaffe, Allen, Douglas, Stern, Sweeney, Kelly, Kelly, Aster, Foss, Weinstock, Activity of the PI3k-d,g inhibitor Duvelisib in a Phase I Trial and Preclinical Models of T-Cell Lymphoma, Blood, 2017 Nov
Abelin, Patel, Lu, Feeney, Fagbami, Creech, Hu, Lam, Davison, Pino, Qiao, Kuhn, Officer, Li, Abbatiello, Subramanian, Sidman, Snyder, Carr, Jaffe, Reduced-representation phosphosignatures measured by quantitative targeted MS capture cellular states and enable large-scale comparison of drug-induced phenotypes, Molecular and Cellular Proteomics, 2016 May
Alexis Garduno
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PhD Student
Research Interests
Education
Projects
Contact
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Full Name
Anh Pham
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Ph.D. Student
Research Interests
Text and data mining in medical literature, Knowledge representation and sharing using machine learning and AI, Data management
Education
Bachelor of Sciences (Mathematics/Economics) - UC San Diego, La Jolla, CA
Projects
SciCrunch: promote research reproducibility with machine learning tools
Karen Stocks, Stephen Diggs (Scripps Institution of Oceanography): SeaView (part of EarthCube), data integration across multiple repositories
Contact
Behrooz Mamandipoor
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Full Name
Research Interests
Education
Contact
Briana Chronister
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UCSD/SDSU Joint Doctoral Program in Public Health, Global Health
Education
BS Biological Sciences
MS Global HealthResearch Interests
Environmental health, and more specifically, in identifying social and behavioral factors that increase exposures to toxic chemicals, and assessing their subsequent effects on healthContact
bcortez@health.ucsd.edu
Brian Daniel Johnson
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Full Name
Research Interests
Education
Contact
Christopher Fong
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UCSD/SDSU Joint Doctoral Program in Clinical Psychology
Education
MA in PsychologyResearch Interests
Examining the neural correlates of treatment in comorbid Posttraumatic Stress Disorder and Alcohol Use Disorders.Contact
c4fong@ucsd.edu
David Brian Laub
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Full Name
Research Interests
Education
Contact
Grace Yu
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Full Name
Research Interests
Education
Contact
Hyrum Surya Eddington
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BISB PhD Student
Research Interests
Education
Projects
Contact
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Full Name
Research Interests
Education
Projects
Contact
Jonathan Lam
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BISB Ph.D. Student
Research Interests
Artificial intelligence for disease diagnosis, Data privacy and storage using blockchainEducation
B.S. in Neurobiology, University of Washington (2017)- Selected Publications
Bevacqua R, Dai X, Lam JY, Gu X, Friedlander M, Tellez K, et al. CRISPR-based genome editing in primary human pancreatic islet cells. Nature Communications (2021) - Bevacqua R, Lam JY, Peiris H, Whitener RL, Kim S, Gu X, Kim SK. SIX2 and SIX3 coordinately regulate functional maturity and fate of human pancreatic cells. Genes and Development (2021)
- The Tabula Muris Consortium et al. A single-cell transcriptomic atlas characterizes ageing tissues in the mouse. Nature (2020)
- The Tabula Muris Consortium et al. Single-cell transcriptomics of 20 mouse organs creates a Tabula Muris. Nature (2018)
- Peiris H, Park S, Louis S, Gu X, Lam JY, Asplund O, Ippolito GC, Bottino R, Groop L, Tucker H, Kim SK. Discovering human diabetes-risk gene function with genetics and physiological assays. Nature Communications (2018)
- Melief EJ, McKinley JW, Lam JY, Whiteley N, Bamford NS, Palmiter RD, Darvas M. (2018) Loss of glutamate signaling from the thalamus to dorsal striatum impairs motor function and slows the execution of learned behaviors. npj Parkinson's Disease (2018)
Contact
j7lam@ucsd.edu - Selected Publications
Jonathan Pekar
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Ph.D. Student
Research Interests
Phylogenetics, Viral evolution and transmission, Blockchain platforms
Education
B.A. in Biology, Williams College, M.S. in Bioengineering, UC San Diego
Selected Publications
Machado, et al. "Strain-Specific Metabolic Requirements Revealed by a Defined Minimal Medium for Systems Analyses of Staphylococcus Aureus", Applied and Environmental Microbiology (2019)
Pekar, et al. "Gapless, Unambiguous Genome Sequence for Escherichia coli C, a Workhorse of Industrial Biology", Microbiology Resource Announcements (2018)
Contact
jepekar@eng.ucsd.edu
Kuan-Hung Yeh
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BISB PhD Student
Research Interests
Clinical Informatics, Genetic Disease Screening, Techniques for combining DNA and RNA-sequencing analyses with electronic medical records to aid in personalized medicine efforts.
Education
B.S. in Bioengineering- University of California, San Diego
Selected Publications
Pineda G, Lennon KM, Delos santos NP, et al. Tracking of Normal and Malignant Progenitor Cell Cycle Transit in a Defined Niche. Sci Rep. 2016;6:23885.
Holm F, Hellqvist E, Mason CN, Ali SA, Delos-Santos N, Barrett CL, Chun HJ, Minden MD, Moore RA, Marra MA, Runza V, Frazer KA, Sadarangani A, Jamieson CH. Reversion to an embryonic alternative splicing program enhances leukemia stem cell self-renewal. Proc Natl Acad Sci USA. 2015;112(50):15444-9.
Contact
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Research Interests
Education
Projects
Contact
Lauryn Keeler Bruce
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BISB PhD Student
Margie Hernandez Mejia
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Margie Hernandez Mejia, M.A.
Education
M.A. in Clinical Psychology, University of North Carolina Wilmington
Research Interests
Neurocognitive and structural brain changes related to healthy adolescent neurodevelopment and substance misuse. Risk factors for adverse neural and behavioral outcomes among ethnic minority youth.
Contact
Molly Wilkinson
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Joint Ph.D. program in Clinical Psychology
Education
BS Behavioral NeurosciencesResearch Interests
The use of multimodal task-based neuroimaging integration, specifically fMRI and MEG, to study neural activity in adolescents with autism spectrum disorderContact
mollykwilkinson@gmail.com
Nora Satybaldiyeva
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Joint Ph.D. program in Public Health, Epidemiology
Education
BS Biology
MPH EpidemiologyResearch Interests
Using epidemiological methods to understand cannabis and tobacco co-use among adolescentsContact
norasati@gmail.com
Timothy Arthur
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BISB PhD Student
Research Interests
Comparative genomics, Microbial ecology, Host-microbe interactions, Microbiome
Education
Master of Science, Microbial Biology - Rutgers University, 2014, Bachelor of Science, Biological Sciences - Rowan University, 2012
Publications
Jiang X*, Hall AB*, Arthur TD , [4 more authors], Alm EJ, and Xavier RJ. Invertible promoters mediate antibiotic resistance and interhost adaptation. In review, Science.
Vatanen T, Plichta CR, Somani J, Arthur TD , [13 more authors], Huttenhower C, Knip M, and Xavier RJ. Strain diversity of the human gut microbiome in early life. In review, Nature Microbiology.
Vatanen T, Franzosa EA, Schwager R, Tripathi S, Arthur TD , [16 more authors], Huttenhower C, and Xavier RJ. The human gut microbiome of early onset type 1 diabetes in the TEDDY study. Accepted, Nature, April 2018.
Yassour M*, Jason E*, Hogstrom L*, Arthur TD, [12 more authors], Lander ES, Huttenhower C, Knip M and Xavier RJ. Strain-level identification of mother-to-child bacterial transmission during the first few months of life. Cell Host and Microbe, 2018. PMID: 30001517
Vatanen T, Kostic AD, d'Hennezel E, Siljander H, Franzosa EA, Yassour M, Kolde R, Vlamakis H, Arthur TD , [16 more authors], Xavier RJ. Variation in Microbiome LPS Immunogenicity Contributes to Autoimmunity in Humans. Cell , 2016. PMID: 27133167
Arthur TD, Cavera VL, Chikindas ML. On bacteriocin delivery systems and potential applications. Future Microbiology , 2014. PMID: 24571075
Contact
Varshini Sathish
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BISB PhD Student
Research Interests
Machine-assisted protein characterization, Disease discovery and characterization using probabilistic models
Education
Bachelor of Arts (Computer Science) Pomona College, Claremont CA, 2017
Projects
Aaron Leconte, Andre Cavalcanti: Adapting Statistical Coupling Analysis (SCA) for protein engineering (undergraduate)
Contact
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Full Name
Research Interests
Education
Projects
Contact
Wilfredo Gabriel Gonzalez-Rivera
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BISB PhD Student
Research Interests
Precision Medicine, Genetics, Genomics, Social Science in Genomics
Research Focus: "I aim to increase recognition of the importance of including underrepresented racial and ethnic groups in genomic research to improve the accuracy and generalizability of precision medicine for all."
Education
B.S. Computer Science - University of Puerto Rico, Mayaguez, 2021
B.S. Industrial Biotechnology - University of Puerto Rico, Mayaguez, 2021Awards
STARS Graduate Advocate, 2023
Alfred P. Sloan Scholar Fellowship, 2022
Competitive Edge Scholar, 2022Contact
Ziqi Xu
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BISB PhD Student
Research Interests
Education
Selected Publications
Contact
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Full Name