BIOINFORMATICS ORIGINAL PAPER Sequence analysis (2008)
Kenzie D. Macisaac, D. Benjamin Gordon, Lena Nekludova, Duncan T. Odom, Joerg Schreiber, David K. Gifford, ...
A hypothesis-based approach for identifying the binding specificity of regulatory proteins from chromatin immunoprecipitation data Vol. 22 no. 4 2006, pages 423–429 doi:10.1093/bioinformatics/bti815
Networks in Saccharomyces cerevisiae (2008)
S. Nicholson, S. Some, B. Kone, J. Clim, Tong Ihn Lee, Nicola J. Rinaldi, ...
transport (32). The model was also used for tracer forecasts during the MINOS campaign. 40. E. Roeckner et al. “The atmospheric general circulation model ECHAM-4: Model description and simulation...
Zebrafish promoter microarrays identify actively transcribed embryonic genes (2006)
Wardle, Fiona C, Odom, Duncan T, Bell, George W, Yuan, Bingbing, Danford, Timothy W, Wiellette, Elizabeth L, ...
Abstract We have designed a zebrafish genomic microarray to identify DNA-protein interactions in the proximal promoter regions of over 11,000 zebrafish genes. Using these microarrays, together with...
Genome-Wide Analysis of Menin Binding Provides Insights into MEN1 Tumorigenesis (2006)
Peter C. Scacheri, Sean Davis, Duncan T. Odom, Gregory E. Crawford, Stacie Perkins, Mohamad J. Halawi, ...
Multiple endocrine neoplasia type I (MEN1) is a familial cancer syndrome characterized primarily by tumors of multiple endocrine glands. The gene for MEN1 encodes a ubiquitously expressed tumor...
Genome-Wide Analysis of Menin Binding Provides Insights to MEN1 Tumorigenesis (2006)
Peter C Scacheri, Sean Davis, Duncan T Odom, Gregory E Crawford, Stacie Perkins, Mohamad J Halawi, ...
Multiple Endocrine Neoplasia, type I (MEN1) is a familial cancer syndrome characterized primarily by tumors of multiple endocrine glands. The gene for MEN1 encodes a ubiquitously expressed tumor...
Kenzie D. Macisaac, D. Benjamin Gordon, Lena Nekludova, Duncan T. Odom, Joerg Schreiber, David K. Gifford, ...
Motivation: Genome-wide chromatin-immunoprecipitation (ChIPchip) detects binding of transcriptional regulators to DNA in vivo at low resolution. Motif discovery algorithms can be used to discover...
MacIsaac, Kenzie D., Gordon, D. Benjamin, Nekludova, Lena, Odom, Duncan T., Schreiber, Joerg, Gifford, David K., ...
Motivation: Genome-wide chromatin-immunoprecipitation (ChIP-chip) detects binding of transcriptional regulators to DNA in vivo at low resolution. Motif discovery algorithms can be used to discover...
Charge transport through DNA four-way junctions (2001)
Odom, Duncan T., Dill, Erik A., Barton, Jacqueline K.
Long range oxidative damage as a result of charge transport is shown to occur through single crossover junctions assembled from four semi-complementary strands of DNA. When a rhodium complex is...
Charge transport through DNA four-way junctions (2001)
Odom, Duncan T., Dill, Erik A., Barton, Jacqueline K.
Long range oxidative damage as a result of charge transport is shown to occur through single crossover junctions assembled from four semi-complementary strands of DNA. When a rhodium complex is...
Charge transport through DNA four-way junctions
Odom, Duncan T., Dill, Erik A., Barton, Jacqueline K.
Long range oxidative damage as a result of charge transport is shown to occur through single crossover junctions assembled from four semi-complementary strands of DNA. When a rhodium complex is...
Zhang, Xinmin, Odom, Duncan T., Koo, Seung-Hoi, Conkright, Michael D., Canettieri, Gianluca, Best, Jennifer, ...
Hormones and nutrients often induce genetic programs via signaling pathways that interface with gene-specific activators. Activation of the cAMP pathway, for example, stimulates cellular gene...
Genome-Wide Analysis of Menin Binding Provides Insights into MEN1 Tumorigenesis
Scacheri, Peter C, Davis, Sean, Odom, Duncan T, Crawford, Gregory E, Perkins, Stacie, Halawi, Mohamad J, ...
Multiple endocrine neoplasia type I (MEN1) is a familial cancer syndrome characterized primarily by tumors of multiple endocrine glands. The gene for MEN1 encodes a ubiquitously expressed tumor...
Charge transport through DNA four-way junctions
Odom, Duncan T., Dill, Erik A., Barton, Jacqueline K.
Long range oxidative damage as a result of charge transport is shown to occur through single crossover junctions assembled from four semi-complementary strands of DNA. When a rhodium complex is...
Zhang, Xinmin, Odom, Duncan T., Koo, Seung-Hoi, Conkright, Michael D., Canettieri, Gianluca, Best, Jennifer, ...
Hormones and nutrients often induce genetic programs via signaling pathways that interface with gene-specific activators. Activation of the cAMP pathway, for example, stimulates cellular gene...
Genome-Wide Analysis of Menin Binding Provides Insights into MEN1 Tumorigenesis
Scacheri, Peter C, Davis, Sean, Odom, Duncan T, Crawford, Gregory E, Perkins, Stacie, Halawi, Mohamad J, ...
Multiple endocrine neoplasia type I (MEN1) is a familial cancer syndrome characterized primarily by tumors of multiple endocrine glands. The gene for MEN1 encodes a ubiquitously expressed tumor...
Zebrafish promoter microarrays identify actively transcribed embryonic genes
Wardle, Fiona C, Odom, Duncan T, Bell, George W, Yuan, Bingbing, Danford, Timothy W, Wiellette, Elizabeth L, ...
The development and verification of a genomic microarray for ChIP-chip analysis of zebrafish genes is described.
Core transcriptional regulatory circuitry in human hepatocytes
Odom, Duncan T, Dowell, Robin D, Jacobsen, Elizabeth S, Nekludova, Lena, Rolfe, P Alexander, Danford, Timothy W, ...
We mapped the transcriptional regulatory circuitry for six master regulators in human hepatocytes using chromatin immunoprecipitation and high-resolution promoter microarrays. The results show that...
Palomero, Teresa, Lim, Wei Keat, Odom, Duncan T., Sulis, Maria Luisa, Real, Pedro J., Margolin, Adam, ...
The NOTCH1 signaling pathway directly links extracellular signals with transcriptional responses in the cell nucleus and plays a critical role during T cell development and in the pathogenesis over...
Transcriptional regulatory networks downstream of TAL1/SCL in T-cell acute lymphoblastic leukemia
Palomero, Teresa, Odom, Duncan T., O'Neil, Jennifer, Ferrando, Adolfo A., Margolin, Adam, Neuberg, Donna S., ...
Aberrant expression of 1 or more transcription factor oncogenes is a critical component of the molecular pathogenesis of human T-cell acute lymphoblastic leukemia (T-ALL); however, oncogenic...
Cell Cycle Genes Are the Evolutionarily Conserved Targets of the E2F4 Transcription Factor
Conboy, Caitlin M., Spyrou, Christiana, Thorne, Natalie P., Wade, Elizabeth J., Barbosa-Morais, Nuno L., Wilson, Michael D., ...
Maintaining quiescent cells in G0 phase is achieved in part through the multiprotein subunit complex known as DREAM, and in human cell lines the transcription factor E2F4 directs this complex to its...
Genome-Scale Validation of Deep-Sequencing Libraries
Schmidt, Dominic, Stark, Rory, Wilson, Michael D., Brown, Gordon D., Odom, Duncan T.
Chromatin immunoprecipitation followed by high-throughput (HTP) sequencing (ChIP-seq) is a powerful tool to establish protein-DNA interactions genome-wide. The primary limitation of its broad...