Research - UVA Computational Biology PhD

Our program focuses on cutting-edge research at the intersection of computation and biology. Faculty in the Computational Biology program are engaged in cutting-edge research in a variety of areas, including computational genomics, systems biology, and bioinformatics. Explore opportunities with our world-class faculty across diverse research areas including genomics, AI in medicine, and more. Learn about our specialized training that prepares students for research excellence.

The best way to learn about the research being done by our faculty is to visit their websites and read their recent publications. You can find a list of faculty members and their websites on the faculty page. You can also browse papers from UVA COBI on PUBMED.

Recent Publications

1. HLA-focused type 1 diabetes genetic risk prediction in populations of diverse ancestry.

2. Correction: Development and recalibration of a multivariable type 1 diabetes prediction model for type 1 diabetes across multiple screening studies.

3. Elevated intracellular copper induces CTR1 monomerization and prevents copper uptake.

4. Peptide-based drug design using generative AI.

5. Type 2 Diabetes Genetic Risk and Type 1 Diabetes Heterogeneity and Progression.

6. Genetic Predictors of Response to Oral Insulin for Type 1 Diabetes Prevention.

7. Proteome-wide association study of prostate cancer risk across populations.

8. Epigenome-wide association study of nuclear DNA methylation in relation to mitochondrial heteroplasmy.

9. MEF2C controls segment-specific gene regulatory networks that direct heart tube morphogenesis.

10. Single-cell dynamics reveal a stress-induced decision between hypertrophy and apoptosis in neonatal rat cardiomyocytes.

11. Association of Epigenetic Age Acceleration and Mitochondrial DNA-Based Aging Metrics Provides Insights Into Mechanisms of Aging-Related Diseases.

12. Author Correction: Brahma safeguards canalization of cardiac mesoderm differentiation.

13. Human plasma proteomic profile of clonal hematopoiesis.

14. Genome-wide gene-sleep interaction study identifies novel lipid loci in 732,564 participants.

15. Metabolic network analysis of Crohn's disease reveals sex- and age-specific cellular phenotypes.

16. Quantifying the impact of early life growth adversity on later life health.

17. Development and Validation of a Type 1 Diabetes Multi-Ancestry Polygenic Score.

18. Flexible nanoelectronics reveal arrhythmogenesis in transplanted human cardiomyocytes.

19. Characterizing Spatiotemporal Expansion of Pseudomonas aeruginosa Communities in Polymer and Mucin Gel Environments.

20. N-Palmitoyl Glutamine Is a Candidate Mediator of Cardiorespiratory Fitness.

21. Genetic architecture and analysis practices of circulating metabolites in the NHLBI Trans-Omics for Precision Medicine Program.

22. Atacformer: A transformer-based foundation model for analysis and interpretation of ATAC-seq data.

23. Association of metabolomics measurements with blood cell phenotypes.

24. Apolipoprotein E (APOE) regulates the transport of monosialotetrahexosylganglioside (GM1).

25. AI-powered programmable virtual humans toward human physiologically-based drug discovery.

26. ConceptDrift: leveraging spatial, temporal and semantic evolution of biomedical concepts for hypothesis generation.

27. Transcriptional condensates at super-enhancers mediate pH-dependent transcriptional control in innate immunity.

28. Insights, opportunities, and challenges provided by large cell atlases.

29. Patient-informed CRISPR Screen Identifies FLNB as a Novel Congenital Heart Disease and Ciliopathy Gene.

30. Taming the reference genome jungle: the refget sequence collection standard.

31. Systems analysis reveals neuregulin-1 control of cardiomyocyte size and shape mediated by distinct PI3K and p38 pathways.

32. PSP-0119: Targeted IRAK4 Degradation as a Novel Therapeutic Strategy for FLT3-Mutant AML.

33. Associations of High Attenuation Area-Related Proteomic Biomarkers with Fibrotic or Subpleural Interstitial Lung Abnormalities.

34. Polygenic risk score for type 2 diabetes shows context-dependent effects across populations.

35. Triple checkpoint blockade of PD-1, Tim-3, and Lag-3 enhances adoptive T cell immunotherapy in a mouse model of ovarian cancer.

36. Transcriptional Condensates: Epigenetic Reprogramming and Therapeutic Targets in Hematologic Malignancies.

37. Genetic mapping of complement system proteins for islet autoimmunity in children with high risk of T1D.

38. PATTY corrects open-chromatin bias for improved bulk and single-cell CUT&Tag profiling.

39. Single-cell multiomics identifies Tcf1 and Lef1 as key initiators of early thymic progenitor fate.

40. PATTY corrects open chromatin bias for improved bulk and single-cell CUT&Tag profiling.

41. Steroid hormone biosynthesis and dietary related metabolites associated with excessive daytime sleepiness.

42. Stochastic diffusion using mean-field limits to approximate master equations.

43. Genome-wide association study provides novel insight into the genetic architecture of severe obesity.

44. Whole-genome sequence-based association analysis of African American individuals with bipolar disorder and schizophrenia.

45. CCAAT-enhancer binding protein delta functions as a tumor suppressor gene in acute myeloid leukemia.

46. Network Modeling Predicts How DYRK1A Inhibition Promotes Cardiomyocyte Cycling after Ischemic/Reperfusion Injury.

47. HLA-focused type 1 diabetes genetic risk prediction in populations of diverse ancestry.

48. IsoBayes: a Bayesian approach for single-isoform proteomics inference.

49. The Importance of Regulatory Network Structure for Complex Trait Heritability and Evolution.

50. Augmenting early stroke diagnosis with an eye-tracker.