Katie Cardone
Research Specialist
A301 Richards Building
3700 Hamilton Walk, Philadelphia, PA 19104
LinkedIn
Current Projects
- Determining genetic risk for various phenotypes using genome-wide association studies, phenome-wide association studies, and polygenic scores in biobanks.
Education
- MBMI, Master of Biomedical Informatics, University of Pennsylvania, 08/2023-Present
- B.S. in Biobehavioral Health, Pennsylvania State University Schreyer Honors College, 08/2018-05/2022
Work Experience
- Geisinger Medical Center, Research Strategic Initiative Department Undergraduate Intern, 06/2021-05/2022
- Pennsylvania State University Department of Biobehavioral Health, Undergraduate Research Assistant, 11/2019-05/2022
Publications
- For the list of my publications please visit Google Scholar
Lauren Pantalone
Research Project Manager
A301 Richards Building
3700 Hamilton Walk, Philadelphia, PA 19104
Education
Work Experience
- University of Pennsylvania; Research Project Manager, Computational Biomedical Imaging Group, 4/2021-1/2024
- Thomas Jefferson University; Adjunct Professor, Department of Chemistry, 8/2021-5/2022
- University of Pennsylvania; Research Coordinator Senior, Computational Biomedical Imaging Group, 5/2014-4/2021
Publications:
- For the list of my publications please visit Google Scholar
Meghann Risell
Executive Assistant
to
Dr. Marylyn Ritchie, Vice Dean for Artificial Intelligence and Computing
And
Dr. Roy Hamilton, Vice Dean for Inclusion, Diversity, and Equity (IDE)
Perelman School of Medicine, University of Pennsylvania
6th Floor, South Pavilion PCAM Expansion
3400 Civic Center Blvd., Bldg 421, Philadelphia, PA 19104
Office: 215-898-8731 Mobile: 609-784-5116
Scott Dudek
Application Developer
Current Projects
ATHENA – Platform for analyzing genetic data using evolutionary algorithms
PLATO – (PLatform for the Analysis, Translation, and Organization of large-scale data) incorporates a number of filters to select the important SNPs in a genome-wide association study.
Visualization – Developing tools for visualizing data and results for PheWAS projects
Education
B.A. Biology
Washington University
Washington University School of Medicine
Work Experience
Application Developer
Ritchie Lab
University of Pennsylvania
Software Developer
Ritchie Lab
Geisinger
2016-2017
Software Developer
Ritchie Lab
Pennsylvania State University
2011-2016
Software Developer
Ritchie Lab
Vanderbilt University
2004-2011
Software Developer
Bioinformatics Core
Center for Human Genetics Research
Vanderbilt University
2001-2004
Publications
- Bush W.S., Dudek S.M., Ritchie M.D. 2009. Biofilter: a knowledge-integration system for the multi-locus analysis of genome-wide association studies. Pacific Symposium on Biocomputing. 368-79.
- Motsinger A.A., Fanelli T.J., Dudek S.M., Ritchie M.D. 2008. Balanced accuracy as a fitness function in grammatical evolution neural networks is robust to imbalanced data. GECCO. In press.
- Edwards T.L., Lewis K.G., Velez D.R., Dudek S.M., Ritchie M.D. 2008. Exploring the Performance of Multifactor Dimensionality Reduction in Large Scale SNP Studies and in the Presence of Genetic Heterogeneity among Epistatic Disease Models. Human Heredity. 67(3):183-92.
- Bush W.S., Edwards T.L., Dudek S.M., McKinney B.A., Ritchie M.D. 2008. Alternative contingency table measures improves the power and detection of Multifactor Dimensionality Reduction. BMC Bioinformatics. 9:238
- Motsinger-Reif A.A., Dudek S.M., Hahn L.W., Ritchie M.D. 2008. Comparison of approaches for machine learning optimization of neural networks for detecting gene-gene interactions in genetic epidemiology. Genetic Epidemiology. 32(4):325-40.
- Edwards T.L., Bush W.S., Turner S.D., Dudek S.M., Torstenson E.S., Schmidt M., Martin E., Ritchie M.D. 2008 Generating linkage disequilibrium patterns in data simulations using genomeSIMLA. Lecture Notes in Computer Science. 4973: 24-35.
- Schwartz U.I., Ritchie M.D., Bradford Y., Dudek S., Frye-Anderson A., Kim R.B., Roden D.M., Stein C.M. 2008. Genetic determinants of response to warfarin during initial anticoagulation. NEJM. 358(10):999-1008. (PubMed)
- Motsinger A.A., Reif D.M., Dudek S.M., Ritchie M.D. 2006. Dissecting the evolutionary process of grammatical evolution optimized neural networks. IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology. 1-8.
- Bush W.S., Dudek S.M., Ritchie M.D. 2006. Parallel multifactor dimensionality reduction: a tool for the large-scale analysis of gene-gene interactions. Bioinformatics. 22:2173-4. (PubMed)
- Motsinger A.A., Hahn L.W., Dudek S.M., Ryckman K.K., Ritchie M.D. 2006. Alternative Cross-Over Strategies and Selection Techniques for Grammatical Evolution Optimized Neural Networks. Proceedings of Genetic and Evolutionary Computation Conference. 947-949.
- Motsinger A.A., Dudek S.M., Hahn L.W., Ritchie M.D. 2006. Comparison of Neural Network Optimization Approaches for Studies of Human Genetics. Lecture Notes in Computer Science. 3907:103-114.
- Dudek SM, Motsinger AA, Velez DR, Williams SM, Ritchie MD. Data Simulation Software for Whole-Genome Association and Other Studies in Human Genetics. Pac Symp BioComput. 2006;:499-510.
- Reif DM, Dudek SM, Shaffer CM, Wang J, Moore JH. Exploratory visual analysis of pharmacogenomic results. Pac Symp BioComput. 2005;:296-307.
- Glossop NR, Houl JH, Zheng H, Ng FS, Dudek SM, Hardin PE. VRILLE feeds back to control circadian transcription of Clock in the Drosophila circadian oscillator. Neuron. 2003 Jan 23;37(2):249-61.
- Bergelson J, Stahl E, Dudek S, Kreitman M. Genetic variation within and among populations of Arabidopsis thaliana. Genetics. 1998 Mar;148(3):1311-23. (PubMed)
Yuki Bradford
- Genome-Wide / Phenome-Wide Association Studies using electronic medical records
- Genetic Epidemiology and Population Genetics
- Genotype Imputation and Big Data QC
- AIDS Clinical Trials Group (ACTG) HIV treatment response project
- M.S. Statistics, University of Tennessee Knoxville
- M.S. Molecular Biology, Tennessee Technological University
- 2017-present: Bioinformatician / Department of Genetics, University of Pennsylvania
- 2016-2017: Bioinformatics System Analyst / Biomedical and Translational Informatics Institute, Geisinger Health System
- 2014-2016: Bioinformatics Analyst / Center for Systems Genomics, Pennsylvania State University
- 1999-2014: Statistical Genetic Analyst / Center for Human Genetics Research, Vanderbilt University Medical Center
- 1997-1999: Population Data Analyst / Department of Medical Information Management, BlueCross BlueShield of Tennessee