Alexander J. Hartemink

Professor of Computer Science

Computational biology, machine learning, Bayesian statistics, transcriptional regulation, genomics and epigenomics, graphical models, Bayesian networks, hidden Markov models, systems biology, computational neurobiology, classification, feature selection

Appointments and Affiliations

  • Professor of Computer Science
  • Associate Chair of the Department of Computer Science
  • Professor of Biology
  • Bass Fellow

Contact Information

  • Office Location: 308 Research Drive, LSRC D239, Durham, NC 27708-0129
  • Office Phone: +1 919 660 6514
  • Email Address: amink@cs.duke.edu
  • Websites:

Education

  • B.S. Duke University, 1994
  • M.Phil. University of Oxford (United Kingdom), 1996
  • Ph.D. Massachusetts Institute of Technology, 2001

Awards, Honors, and Distinctions

  • Sloan Research Fellowship-Molecular Biology. Alfred P. Sloan Foundation. 2005
  • Faculty Early Career Development (CAREER) Program. National Science Foundation. 2004

Courses Taught

  • ETHICS 450S: What Should I Do With My Life? The Art of Choosing Well
  • ETHICS 291: Independent Study
  • ETHICS 247S: Human Flourishing in a Digital Age
  • COMPSCI 394: Research Independent Study
  • COMPSCI 393: Research Independent Study
  • COMPSCI 260: Introduction to Computational Genomics
  • COMPSCI 247S: Human Flourishing in a Digital Age

In the News

Representative Publications

  • Mitra, Sneha, Rohan Malik, Wilfred Wong, Afsana Rahman, Alexander J. Hartemink, Yuri Pritykin, Kushal K. Dey, and Christina S. Leslie. “Single-cell multi-ome regression models identify functional and disease-associated enhancers and enable chromatin potential analysis.” Nature Genetics, March 2024. https://doi.org/10.1038/s41588-024-01689-8.
  • Chen, Boning, Heather K. MacAlpine, Alexander J. Hartemink, and David M. MacAlpine. “Spatiotemporal kinetics of CAF-1-dependent chromatin maturation ensures transcription fidelity during S-phase.” Genome Res 33, no. 12 (December 11, 2023): 2108–18. https://doi.org/10.1101/gr.278273.123.
  • Mitra, Sneha, Rohan Malik, Wilfred Wong, Afsana Rahman, Alexander J. Hartemink, Yuri Pritykin, Kushal K. Dey, and Christina S. Leslie. “Single-cell multiome regression models identify functional and disease-associated enhancers and enable chromatin potential analysis.” Cold Spring Harbor Laboratory, June 14, 2023. https://doi.org/10.1101/2023.06.13.544851.
  • Chen, Boning, Heather K. MacAlpine, Alexander J. Hartemink, and David M. MacAlpine. “Spatiotemporal kinetics of CAF-1-dependent chromatin maturation ensures transcription fidelity during S-phase.,” May 26, 2023. https://doi.org/10.1101/2023.05.25.541209.
  • Luo, Kaixuan, Jianling Zhong, Alexias Safi, Linda K. Hong, Alok K. Tewari, Lingyun Song, Timothy E. Reddy, Li Ma, Gregory E. Crawford, and Alexander J. Hartemink. “Profiling the quantitative occupancy of myriad transcription factors across conditions by modeling chromatin accessibility data.” Genome Res 32, no. 6 (June 2022): 1183–98. https://doi.org/10.1101/gr.272203.120.