Alexander J. Hartemink

Duke University — United States

Biochemistry, Genetics and Molecular Biology · Life Sciences

42h-index10.0kcitations117works11.22yr avg
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Research Topics

Genomics and Chromatin Dynamics(46), Gene expression and cancer classification(27), Gene Regulatory Network Analysis(23), Bioinformatics and Genomic Networks(17), RNA and protein synthesis mechanisms(15)

Publications117 total

Genome-wide nucleosome and transcription factor responses to genetic perturbations reveal chromatin-mediated mechanisms of transcriptional regulation
Genome Research·2025Open Access
Inferring differential protein binding from time-series chromatin accessibility data
Bioinformatics Advances·2024Open Access
Genome-wide nucleosome and transcription factor responses to genetic perturbations reveal chromatin-mediated mechanisms of transcriptional regulation
2024· 1 citedOpen Access
Author Correction: Single-cell multi-ome regression models identify functional and disease-associated enhancers and enable chromatin potential analysis
Nature Genetics·2024Open Access
Single-cell multi-ome regression models identify functional and disease-associated enhancers and enable chromatin potential analysis
Nature Genetics·2024· 55 citedOpen Access
Spatiotemporal kinetics of CAF-1-dependent chromatin maturation ensures transcription fidelity during S-phase
Genome Research·2023· 7 citedOpen Access
Single-cell multiome regression models identify functional and disease-associated enhancers and enable chromatin potential analysis
2023· 4 citedOpen Access
Spatiotemporal kinetics of CAF-1-dependent chromatin maturation ensures transcription fidelity during S-phase
2023· 3 citedOpen Access
Profiling the quantitative occupancy of myriad transcription factors across conditions by modeling chromatin accessibility data
Genome Research·2022· 2 citedOpen Access
Cell-Cycle–Dependent Chromatin Dynamics at Replication Origins
Genes·2021· 6 citedOpen Access
Cell cycle-dependent chromatin dynamics at replication origins
2021· 1 citedOpen Access
RoboCOP: jointly computing chromatin occupancy profiles for numerous factors from chromatin accessibility data
Nucleic Acids Research·2021· 6 citedOpen Access
Linking the dynamics of chromatin occupancy and transcription with predictive models
Genome Research·2021· 11 citedOpen Access
Local nucleosome dynamics and eviction following a double-strand break are reversible by NHEJ-mediated repair in the absence of DNA replication
Genome Research·2021· 16 citedOpen Access
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
UNC Libraries·2020· 77 citedOpen Access
Integrating MNase-seq and RNA-seq time series data to study chromatin and transcription dynamics under cadmium stress
2020· 2 cited
Quantitative occupancy of myriad transcription factors from one DNase experiment enables efficient comparisons across conditions
2020· 2 citedOpen Access
Linking the dynamics of chromatin occupancy and transcription with predictive models
2020· 2 citedOpen Access
RoboCOP: Jointly computing chromatin occupancy profiles for numerous factors from chromatin accessibility data
2020· 1 citedOpen Access
Data from: RoboCOP: Multivariate state space model integrating epigenomic accessibility data to elucidate genome-wide chromatin occupancy
Research Data Repository, Duke University·2020Open Access
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Frequent Co-authors

Raluca Gordân(8), Erich D. Jarvis(7), V. Anne Smith(6), David K. Gifford(6), Leelavati Narlikar(5), Tommi Jaakkola(4), Richard A. Young(4), Balaji Krishnapuram(3), Lawrence Carin(3), Jing Yu(3), Allister Bernard(3), Edwin S. Iversen(3), Gregory E. Crawford(3), Michael M. Hoffman(2), Manolis Kellis(2), Peter V. Kharchenko(2), Timothy E. Reddy(2), Paul P. Wang(2), Osceola Whitney(2), Miriam Rivas(2)