Anni Moore

  Graduate Student

  A301 Richards Building 
  3700 Hamilton Walk, Philadelphia, PA 19104

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  Github

  Linkedin

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

Brenda Xiao

 Graduate Student

A301 Richards Building 
3700 Hamilton Walk, Philadelphia, PA 19104

This email address is being protected from spambots. You need JavaScript enabled to view it.

Current Projects

Education

Research Experience

Publications:

Chris Jones

  Graduate Student 

  A301 Richards Building 
  3700 Hamilton Walk, Philadelphia, PA 19104

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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

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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

  This email address is being protected from spambots. You need JavaScript enabled to view it.

  Twitter

  GitHub

  LinkedIn

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

Joseph Park

  Graduate Student

  A301 Richards Building 
  3700 Hamilton Walk, Philadelphia, PA 19104

  This email address is being protected from spambots. You need JavaScript enabled to view it.

  Twitter

Current Projects

• Understanding how genetic variants predispose to or protect from human disease by cross-referencing DNA sequencing data with phenotype data derived from electronic health records (EHR), with specific interests in rare coding variants and cardiovascular+metabolic diseases

Education

Work Experience

• Chan Laboratory, Harvard Medical School, Brigham and Women's Hospital
  2012-2015
• Hofstra University, Department of Mathematics, Dr. Dan Ismailescu
  2008-2011
• Beth Israel Medical Center, Department of Surgery, Dr. I Michael Leitman
  2008-2011

Publications:

For the list of my publications please visit Google Scholar

Karl Keat

  Graduate Student 

  A301 Richards Building 
  3700 Hamilton Walk, Philadelphia, PA 19104

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  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

Pankhuri Singhal

 Graduate Student 

  A301 Richards Building 
  3700 Hamilton Walk, Philadelphia, PA 19104

  This email address is being protected from spambots. You need JavaScript enabled to view it.

  Personal website

  LinkedIn

  GitHub

Current Projects

Temporal modeling of patient health trajectories in electronic health records + omic data to

1. identify disease comorbidity patterns over time and
2. predict next clinical event based on disease path insights

Education

• University of Pennsylvania (Philadelphia, PA) | 2017 – Present
  Ph.D. candidate in Genetics
• Northeastern University (Boston, MA) | 2017
  B.S. in Neuroscience

Work Experience

• Monaghan Laboratory | 2014-2017
  Northeastern University, Dept. of Biology
  Undergraduate researcher
• Editas Medicine | 2015 & 2016
  Molecular biology co-op (full time jan-aug)

Publications

For the list of my publications please visit Google Scholar.

Rachit Kumar

 Graduate Student

  A301 Richards Building 
  3700 Hamilton Walk, Philadelphia, PA 19104

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  Github

  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 

Van Truong

 Graduate Student

  Co-Mentored by Dr. Marylyn Ritchie and Dr. John Wherry

  A301 Richards Building 
  3700 Hamilton Walk, Philadelphia, PA 19104

Current Projects

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)

William Bone

  Graduate Student

  A301 Richards Building 
  3700 Hamilton Walk, Philadelphia, PA 19104

  This email address is being protected from spambots. You need JavaScript enabled to view it.

  https://wpbone06.github.io/

Current Projects

Using multi-trait genetic association methods to better understand the genetic etiology of cardiometabolic diseases.

Education

Work Experience

• Recursion Pharmaceuticals 2022
• Data Science InternAgilent Technologies 2015-2017
• Bioinformatics EngineerNational Institutes of Health Undiagnosed Diseases Program 2012 – 2015
• Post-baccalaureate Intramural Research Trainee

Publications:

For the list of my publications please visit Google Scholar