Anni Moore
Graduate Student
A301 Richards Building
3700 Hamilton Walk, Philadelphia, PA 19104
Current Projects
- Using genomic, expression, and EHR data to build pipelines investigating human disease associations
Education
Work Experience
- Post-baccalaureate IRTA Fellow 2019 – 2021
Computational Biology Group
Lab of Neurogenetics
NIH/NIA
Bethesda, MD - Computational Research Assistant 2018-2019
Danna and Pearson Labs
University of Virginia
Charlottesville, VA - Bioinformatics Intern 2018
Translational Sciences Group
Sanofi
Framingham, MA
Publications:
For the list of my publications please visit Google Scholar
Chris Jones
Graduate Student
A301 Richards Building
3700 Hamilton Walk, Philadelphia, PA 19104
Current Projects
I am interested in leveraging human genomic diversity, multi-omics data, and phenotypic data such as electronic health records (EHR) to investigate the role of genomic variation in immune-related traits.
Education
Work Experience
- GeneOne Life Science, Fort Washington, PA 2019 - 2021
Clinical Scientist, Clinical Development Group - Monell Chemical Senses Center, Philadelphia, PA 2019 - 2021
Visiting Scientist, Lab of Danielle Reed, PhD.
Publications:
Daniel Hui
Graduate Student
A301 Richards Building
3700 Hamilton Walk, Philadelphia, PA 19104
Current Projects
I am interested in the genetic basis for human traits and diseases, with a focus on cardiometabolic diseases and related anthropometric traits. I am especially interested in using individuals from diverse ancestry and environment in order to facilitate discovering and quantifying the effects of different genetic loci. I hope the research I conduct will improve human health for populations all around the world, especially for conditions that have a large healthcare burden and are significantly genetic in their etiology.
Education
- University of Pennsylvania, PhD Genomics and Computational Biology, 2019-Present
- University of Pittsburgh, B.S. Computer Science, 2013-2017
Research Experience
- Graduate Research Assistant, University of Pennsylvania, Perelman School of Medicine, Fall 2019 - Present. Advisors: Drs. Marylyn Ritchie and Sarah Tishkoff
- Bioinformatician, Brigham and Women's Hospital, Harvard Medical School, The Broad Institute, September 2019-May 2019
- Undergraduate Research Assistant, Children's Hospital of University of Pittsburgh Medical Center, University of Pittsburgh, May 2014-May 2017
Publications:
For the list of my publications please visit Google Scholar
David Zhang
Graduate Student
A301 Richards Building
3700 Hamilton Walk, Philadelphia, PA 19104
Current Projects
- Computational genetics, biomedical informatics, disease pathophysiology
Education
Work Experience
- Harvard Summer Institute in Biomedical Informatics (Kohane Lab) - Summer 2018
- Summer Research Intern (Brigham Genomic Medicine group) - Summer 2017
Publications:
For the list of my publications please visit Google Scholar
Karl Keat
Graduate Student
A301 Richards Building
3700 Hamilton Walk, Philadelphia, PA 19104
Twitter
ORCID
GitHub
LinkedIn
Current Projects
- Using genomics, machine learning, and multi-omics data to improve drug response prediction and precision medicine.
Education
Work Experience
- Harvard Summer Institute in Biomedical Informatics (Sunyaev Lab) - Summer 2019
- Broad Summer Research Program (Regev Lab) - Summer 2018
- TecBio REU at The University of Pittsburgh (Cooper Lab) - Summer 2017
- NIH Summer Internship Program (Baxevanis Lab) - Summer 2015, 2016
Publications:
For the list of my publications please visit Google Scholar
Rachit Kumar
Graduate Student
A301 Richards Building
3700 Hamilton Walk, Philadelphia, PA 19104
Github
Website
Google Scholar
Current Projects
- Incorporation of domain knowledge in a domain-agnostic way using network representations of data and known relationships
- Developing methods of representing patients that allow us to identify treatment plans for individual patients
- Using machine learning and deep learning to improve clinical and basic science understanding through rigorous hypothesis generation from preexisting data
Education
- MD-PhD, University of Pennsylvania, 08/2020-Present
Doctor of Medicine, Perelman School of Medicine, University of Pennsylvania, 08/2020-Present
Doctor of Philosophy, Genomics and Computational Biology, University of Pennsylvania, 08/2022-Present
- B.S. in Biomedical Engineering, Georgia Institute of Technology, 08/2016-05/2020
Work Experience
Publications
For the list of my publications please visit Google Scholar
Rasika Venkatesh
Graduate Student
A301 Richards Building
3700 Hamilton Walk, Philadelphia, PA 19104
Current Projects
- Utilizing machine learning and statistical methods for the integration multiple data modalities to improve risk prediction of complex diseases
Education
Work Experience
- Bioinformatics Research Specialist - Carvajal-Carmona Lab (2020 - 2022)
UC Davis Genome Center, Davis CA - Bio-Development Sequencing Intern - Cepheid (2020 - 2021)
Cepheid, Sunnyvale CA - Assay Development Intern - Roche R&D (2019 - 2019)
Roche Sequencing Solutions, Pleasanton CA - Research Assistant - Wiltgen Lab (2018 - 2021)
UC Davis Center for Neuroscience, Davis CA
Publications:
For the list of my publications please visit Google Scholar
Van Truong
Graduate Student
Co-Mentored by Dr. Marylyn Ritchie and Dr. John Wherry
A301 Richards Building
3700 Hamilton Walk, Philadelphia, PA 19104
My primary research interests are in knowledge representation in immunology. My current research focuses on developing an immune-focused ontology and high-quality knowledge graph for autoimmunity from heterogeneous multi-omics databases. I am passionate about data integration, structuring information into explicit reasoning, improving the machine-readability of heterogeneous data, and developing user-friendly tools for computational immunology.
My interests outside of science include mountain biking, rock climbing, ultimate frisbee, camping, cooking, foraging, freelance scientific illustration, designing interactive art sculptures, and serving as the Executive Director of Village Bridges, a social impact organization I co-founded with a team of young women from my village to serve our Vietnamese diaspora community.
Education
- PhD Genomics & Computational Biology, Perelman School of Medicine
- MA Statistics (Dual-Degree), Dept. of Statistics & Data Science, Wharton School of Business
- MS Biotechnology, Concentrations in Bioinformatics and Molecular Targets & Drug Discovery
- Postbac Research Education Program, NIGMS/NIH R25 Training Program, Concentration: Computational Epidemiology
- BA Anthropology, Concentrations: Cultural and Biological Anthropology
Work Experience
- National Cancer Institute, 2018-2022
Biotechnology Fellow - Women In Bio Non-Profit, 2019-2020
Sponsorship Chair - Harvard University, 2018
Irene and Eric Simon Foundation Fellow - Harvard T.H. Chan School of Public Health, 2018
Biostatistics Research Intern - Virginia Tech, 2017-2018
PREP (Post-bac Research Education Program) Fellow
Publications
- Van Q. Truong*, Jakob A. Woerner*, Tess A. Cherlin*, Yuki Bradford, Daniel H. Hui, Anastasia M. Lucas, Manu K. Shivakumar, Rachit Kumar, Milton Pividori, Chelsea C. Okeh, S. Chris Jones, Abigail C. Bossa, Stephen D. Turner, Marylyn D. Ritchie and Shefali S. Verma. Quality Control Procedures for Genome-Wide Association Studies. Curr Protoc Hum Genet. (2022) *Denotes equal first-author contributions
- Momchil S. Tomov, Van Q. Truong, Rohan A. Hundia, Sam J. Gershman. Dissociable Neural Correlates of Uncertainty Underlie Different Exploration Strategies. Nature Communications, (2020). DOI: 10.1038/s41467-020-15766-z.
- Marshall Goodwin, Cara L. Croft, Hunter S. Futch, Daniel Ryu, Carolina Ceballos-Diaz, Xuefei Liu, Giavanna Paterno, Catalina Mejia, Doris Deng, Kimberly Menezes, Laura Londono, Kefren Arjona, Mary Parianos, Van Truong, Eva Rostonics, Amanda Hernandez, Sanford L. Boye, Shannon E. Boye, Yona Levites, Pedro E. Cruz, Todd E. Golde. Utilizing minimally purified secreted rAAV for rapid and cost-effective manipulation of gene expression in the CNS. BMC Molecular Neurodegeneration, 15:15 (2020). DOI: 10.1186/s13024-020-00361-z.
- Hunter S. Futch, Cara L. Croft, Van Q. Truong, Eric G. Krause, Todd E. Golde. Targeting psychological stress signaling pathways in Alzheimer's disease. BMC Molecular Neurodegeneration, Volume 12, Number 1, Page 1 (2017). DOI: 10.1186/s13024-017-0190-z
- William Brewer, Yan Xin, Chris Hatem, David Diercks, Van Truong, Kevin Jones. Lateral GE Diffusion During Oxidation of Si/SiGe Fins. Nano Letters, 2017, 12 (4), pp 2159-2164. DOI: 10.1021/acs.nanolett.6b04407
- A. G. Lind, T. P. Martin Jr., V. C. Sorg, E. L. Kennon, V. Q. Truong, H. L. Aldridge, C. Hatem, M. O Thompson, K. S. Jones. Activation of Si Implants Into InAs Characterized by Raman Scattering. Journal of Applied Physics, 119, 095705 (2016). DOI: 10.1063/1.4942880
- Moore, J.H., Truong, V.Q., Robbins, A.B., Nicholson, D., Williams-Devane, CL. Ten important roles for academic leaders to promote equity, diversity, and inclusion in data science. BioData Mining 14, 22 (2021).
- Van Truong. “Beyond Zoom: Virtual Gathering Spaces for the Holidays and Beyond” ExtremeTech. (2020)