Program alumni
| Trainee | Mentor | Years supported by this training grant | Terminal Degree(s) Received and Year | Topic of Research Project | Current position |
| Fueyo, Joanna L. | Ewens, Warren J. Weiser, Jeffrey N. |
2000-2002 | PhD 2002 | In Silico Discovery of Antimicrobial Targets | Visiting Scholar Bioinformatics Boston University Research-Intensive |
| Buehler, Eugen | Unger, Lyle H. | 2000-2003 | PhD 2003 | Statistical Models for the Analysis of Heterogeneous Biological Data Sets |
Senior Scientist Data Science & AI AstraZeneca Research-Related |
| Schein, Andrew I. | Unger, Lyle H. | 2000-2004 | PhD 2005 | Active Learning for Logistic Regression, A -optimality | Software Engineer Google Research-Related |
| Fingerman, Ethan | Sniegowski, Paul | 2001-2004 | PhD 2004 | Sequence evolution of the retrotransposon Ty3 in natural isolates of saccharomyces cerevisiae ad saccharomyces paradozus | Associate Director Marketing Demira, Inc. Other |
| Infante, Aniello | Kannan, Sampath | 2002 | None | Unknown | |
| Harb, Boulos | Kannan, Sampath Guha, Sudipto |
2003-2005 | PhD 2007 | Algorithms for Linear and Nonlinear Approximation of Large Data | Senior Staff Software Engineer Research-Related |
| Suri, Siddharth | Kearns, Michael | 2003-2005 | PhD 2007 | The Effects of Network Topology on Strategic Behavior | Senior Researcher, Microsoft Research Research-Related |
| Sandler, Samuel T. | Ungar, Lyle H. | 2004-2007 | PhD 2010 | Regularized learning with feature networks | Researcher, Amazon.com Research-Related |
| Diskin, Sharon J. | Maris, John M.
Ewens, Warren J. |
2005-2007 | PhD 2008 | The Role of Germline and Tumor DNA Copy Number in Neuroblastoma Tumorgenesis | Assistant Professor Pediatrics Perelman School of Medicine, University of Pennsylvania Research-Intensive |
| Imielinski, Marcin B. | Rubin, Harvey | 2006-2007 | PhD 2007 MD 2009 |
In Silico Analysis of Microbial Biosynthetic Capabilities at the Genome-Scale. | Assistant Professor Pathology and Laboratory Medicine and Computational Genomics Weill Cornell Medical College Research-Intensive |
| Essien, Kobby | Stoeckert, Christian J. | 2005-2008 | PhD 2009 | Computational approaches for studying transcriptional regulation in Plasmodium and other apicomplexan parasites | Principal Launch Center of Excellence IQVIA Research-Related |
| Simola, Daniel F. | Kim, Junhyong | 2005-2007 | PhD 2009 | Evolution of Genome-Wide Gene Regulation in the Budding Yeast Cell- Division Cycle | GSK Associate Fellow, Scientific Leader, GlaxoSmithKline Pharma GmbH Research-Related |
| Hadley, Dexter | Kim, Junhyong | 2002-2007 | PhD 2007
MD 2009 |
Genome-Scale Annotation of Genetic Factors Underlying Neurotransmission & Neuropsychiatric Disease | Assistant Professor Pediatrics UCSF Research-Intensive |
| Bochkis, Irina M. | Kaestner, Klaus H. | 2005-2007 | PhD 2008 | Hepatic Metabolic Regulatory Networks of Foxa2 | Assistant Professor Pharmacology University of Virginia Research-Intensive |
| Tuteja, Geetu S. | Kaestner, Klaus H. | 2005-2007 | PhD 2009 | Illuminating Transcriptional Regulation with Genome-wide Binding Data | Assistant Professor and Gregory L. and Kathleen C. Geoffroy Faculty Fellow Iowa State University Research-Intensive |
| Winter, Cara M. | Wagner, Doris | 2006-2007 | PhD 2011 | Genome wide identification of LEAFY target genes reveals novel insights into reproductive development in Arabidopsis thaliana | Research Scientist Biology Duke University Research-Intensive |
| Evans, James P. | Ungar, Lyle H. | 2007-2010 | PhD 2010 | Modeling virus-host networks | Bioinformatics Scientist Department of Biomedical and Health Informatics Children’s Hospital of Philadelphia Research-Intensive |
| Everett, Logan J. | Master, Steven Hannenhalli, Sridhar |
2007-2009 | PhD 2010 | Genomic methods for studying the post-translational regulation of transcription factors | Bioinformatics Scientist Office of Research and Development National Center for Computational Toxicology Environmental Protection Agency Research-Related |
| Moser, Theresa S. | Cherry, Sara | 2007-2009 | PhD 2011 | The role of AMPK in viral infection | Medical Writer ETHOS Health Communications Research-Related |
| Olarerin-George, Anthony | Hogenesch, John B. | 2006-2010 | PhD 2013 | Functional annotation of MicroRNAs in signal Transduction Pathways | Postdoctoral Associate Pharmacology Weill Cornell Medical College Further Training |
| Sprouffske, Kathleen M. | Maley, Carlo C. | 2007-2009 | PhD 2011 | Modeling the evolutionary and differentiation dynamics of neoplastic progression | Postdoctoral Scientist Oncology Bioinformatics Novartis Institutes for Biomedical Research Further Training |
| Coleman, Ryan G. | Sharp, Kim A. | 2007-2009 | PhD 2009 | Shortest Geometric paths analysis in structural biology | Senior Member of the Technical Staff,
Sandia National Laboratories |
| Purvis, Jeremy E. | Diamond, Scott L.
|
2008-2009 | PhD 2009 | A system approach to cellular signal transduction | Assistant Professor Genetics University of North Carolina, Chapel Hill Research-Intensive |
| Ryvkin, Paul | Wang, Li-San | 2009-2010 | PhD 2013 | Methods in and applications of the sequencing of short non-coding RNAs | Staff Data Scientist Omniome Inc. Research-Related |
| Lahens, Nicholas F. | Hogenesch, John B. | 2009-2010 | PhD 2014 | RNA Splicing and the Circadian Clock | Bioinformatics Researcher Institute for Translational Medicine and Therapeutics Researcher Perelman School of Medicine, University of Pennsylvania Research-Intensive |
| Barendt, Pamela
|
Sarkar, Casim A.
|
2009-2010 | PhD 2011 | Broad-Specificity mRNA–rRNA Complementarity in Efficient Protein Translation | Associate Biotechnology Equity Research Cowen and Company Research-Related |
| Tsai, Ellen A. | Devoto, Marcella Spinner, Nancy B. |
02011-2012 | PhD 2013 | Genomic approaches to understanding variable expressivity in alagille syndrome and genetic susceptibility to biliary atresia | Computational Scientist Biogen Research-Related |
| Burdick, Joshua T. | Murray, John I. | 2010-2012 | PhD 2015 | Location of gene expression in developing C. elegans | Computer Analyst Life Sciences Institute University of Michigan Research-Related |
| Li, Fan | Gregory, Brian D. Wang, Li-San |
2011-2013 | PhD 2013 | The global landscape of RNA secondary structure | Senior Statistician Pediatrics UCLA Health Research-Intensive |
| Sherrill-Mix, Scott | Bushman, Frederic D. | 2011-2013 | PhD 2015 | Developing methods to investigate alternative splicing in HIV and other lentiviruses | Post-Doctoral Researcher Microbiology University of Pennsylvania Further Training |
| Rupp, Levi J. | Bassing, Craig H. | 2011-2013 | PhD 2014 | The role of the RNA processing enzyme Dicer in regulating silencing of the co-receptors CD4 and CD8 during T cell development | CAR-T Group Leader Discovery/Preclinical Research Janssen Inc. Research-Related |
| Hannigan, Brett T. | DeGrado, William F. | 2012-2013 | PhD 2013 | Navigating the extremes of biological datasets for reliable structural inference and design | Senior Director of Science DNAnexus Research-Related |
| Richards, Allison | Cheung, Vivian G. | 2012-2013 | PhD 2015 –mentor moved to University of Michigan | The Role of RNA Editing in Organelle Function | Computational Biologist II, Memorial Sloan Kettering Cancer Center Research-Intensive |
| Kraya (Akl), Adam | Speicher, David W. | 2012-2014 | PhD 2015 | Identification and validation of autophagy biomarkers in genetically related melanoma cell lines with high or low levels of basal autophagy | Computational Biologist Oncology Research-Related |
| Vijayendran, Krishna G | Saven, Jeffrey L. | 2013-2016 | PhD 2017 MD 2019 |
Computationally design a water-soluble variant of the GPCR Smoothened (SMO), area of therapeutic drug resistance |
Post-doctoral researcher University of Pennsylvania Further Training
|
| Zhang, Ray | Hogenesch, John B. | 2012-2013 | PhD 2014 MD 2016 |
Profiling the Circadian transciptomes from a variety of mouse organs | Resident Clinical Pathology Washington University Medical Center Further Training |
| Oldridge, Derek A. | Diskin, Sharon J. Maris, John M. |
2013-2014 | PhD 2015 MD 2017 |
Non-coding mechanisms of functional dysregulation in neuroblastoma | Clinical Pathology Chief Resident Clinical Pathology Program University of Pennsylvania Research-related Further Training |
| Rosario, Jean | Kim, Junhyong | 2014-2018 | In Training | Identifying species specific differences in the dendritic transcriptomes of rodents | |
| Meisel, Jacqueline S. | Grice, Elizabeth A. | 2014-2016 | PhD 2017 | Characterizing the community composition, metabolic potential, and temporal stability of the healthy human skin metagenome and its impact on the host | Postdoctoral Associate Center for Bioinformatics & Computational Biology University of Maryland, College Park Further Training |
| Tian, Kevin | Kannan, Sampath | 2015-2016 | PhD 2016 | Detecting Character Dependencies in Phylogenies | |
| Slaff, Barry | Wang, Li-San | 2015-2017 | None | Computational analysis of Alzheimer’s disease | Graduate Student, Computer Science University of Pennsylvania Further Training
|
| Siewert, Katherine M. | Voight, Benjamin F. | 2015-2017 | PhD 2019 | Population genetics
approach to complex disease genetics |
Post-doctoral fellow Harvard School of Public Health Further Training
|
| Berry, Alexander | Brisson, Dustin | 2014-2016 | PhD 2018 | Comparative analysis of biogeographic distribution of
T. cruzi |
Postdoctoral Researcher Pathobiology University of Pennsylvania Further Training
|
| Mellis, Ian | Raj, Arjun | 2016-2017 | In Training | Experimental and computational analysis of RNA editing
in mammalian cells. |
|
| Way, Gregory P. | Greene, Casey S. | 2017-2019 | PhD 2019 |
Obtaining knowledge from gene expression data across different cancer-types. | Postdoctoral Research Biomedical Imaging, Genomics Associate Broad Institute of MIT and Harvard Further Training |