User profiles for A. J. Hartemink
Alexander J. HarteminkProfessor of Computer Science, Duke University Verified email at cs.duke.edu Cited by 12497 |
ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
Chromatin immunoprecipitation (ChIP) followed by high-throughput DNA sequencing (ChIP-seq)
has become a valuable and widely used approach for mapping the genomic location of …
has become a valuable and widely used approach for mapping the genomic location of …
Sparse multinomial logistic regression: Fast algorithms and generalization bounds
… Hartemink would like to gratefully acknowledge the support of the Alfred P. Sloan
Foundation and the US National Science Foundation under its CAREER award program. M. …
Foundation and the US National Science Foundation under its CAREER award program. M. …
Advances to Bayesian network inference for generating causal networks from observational biological data
J Yu, VA Smith, PP Wang, AJ Hartemink… - …, 2004 - academic.oup.com
Motivation: Network inference algorithms are powerful computational tools for identifying
putative causal interactions among variables from observational data. Bayesian network …
putative causal interactions among variables from observational data. Bayesian network …
Using graphical models and genomic expression data to statistically validate models of genetic regulatory networks
AJ Hartemink, DK Gifford, TS Jaakkola… - Biocomputing …, 2000 - World Scientific
We propose a model-driven approach for analyzing genomic expression data that permits
genetic regulatory networks to be represented in a biologically interpretable computational …
genetic regulatory networks to be represented in a biologically interpretable computational …
Convergent transcriptional specializations in the brains of humans and song-learning birds
INTRODUCTION Vocal learning, the ability to imitate sounds, is a trait that has undergone
convergent evolution in several lineages of birds and mammals, including song-learning birds …
convergent evolution in several lineages of birds and mammals, including song-learning birds …
Computational and experimental identification of novel human imprinted genes
…, JM Bosko, RL Jirtle, AJ Hartemink - Genome …, 2007 - genome.cshlp.org
Imprinted genes are essential in embryonic development, and imprinting dysregulation
contributes to human disease. We report two new human imprinted genes: KCNK9 is …
contributes to human disease. We report two new human imprinted genes: KCNK9 is …
Global control of cell-cycle transcription by coupled CDK and network oscillators
A significant fraction of the Saccharomyces cerevisiae genome is transcribed periodically
during the cell division cycle 1 , 2 , indicating that properly timed gene expression is important …
during the cell division cycle 1 , 2 , indicating that properly timed gene expression is important …
Combining location and expression data for principled discovery of genetic regulatory network models
AJ Hartemink, DK Gifford, TS Jaakkola… - Biocomputing …, 2001 - World Scientific
We develop principled methods for the automatic induction (discovery) of genetic regulatory
network models from multiple data sources and data modalities. Models of regulatory …
network models from multiple data sources and data modalities. Models of regulatory …
Drosophila ORC localizes to open chromatin and marks sites of cohesin complex loading
…, R Gordān, SK Powell, AJ Hartemink… - Genome …, 2010 - genome.cshlp.org
The origin recognition complex (ORC) is an essential DNA replication initiation factor conserved
in all eukaryotes. In Saccharomyces cerevisiae, ORC binds to specific DNA elements; …
in all eukaryotes. In Saccharomyces cerevisiae, ORC binds to specific DNA elements; …
Synergistic and tunable human gene activation by combinations of synthetic transcription factors
Mammalian genes are regulated by the cooperative and synergistic actions of many transcription
factors. In this study we recapitulate this complex regulation in human cells by targeting …
factors. In this study we recapitulate this complex regulation in human cells by targeting …