Our laboratory studies the mammalian circadian clock using genomic and computational tools. We use these tools to discover new clock genes, learn how the clock keeps time, and how it coordinates rhythms in physiology and behavior. This clock research drives development of genomic and computational methods that we apply to other areas of biology. Finally, we recognize biological complexity and conduct this research at the network, rather than single gene, level.
Lahens Nicholas F, Kavakli Ibrahim Halil, Zhang Ray, Hayer Katharina, Black Michael B, Dueck Hannah, Pizarro Angel, Kim Junhyong, Irizarry Rafael, Thomas Russell S, Grant Gregory R, Hogenesch John B: IVT-seq reveals extreme bias in RNA-sequencing. Genome biology 15(6): R86, Jun 2014.
Ramanathan Chidambaram, Xu Haiyan, Khan Sanjoy K, Shen Yang, Gitis Paula J, Welsh David K, Hogenesch John B, Liu Andrew C: Cell type-specific functions of period genes revealed by novel adipocyte and hepatocyte circadian clock models. PLoS Genetics 10(4): e1004244, Apr 2014.
Anafi Ron C, Lee Yool, Sato Trey K, Venkataraman Anand, Ramanathan Chidambaram, Kavakli Ibrahim H, Hughes Michael E, Baggs Julie E, Growe Jacqueline, Liu Andrew C, Kim Junhyong, Hogenesch John B: Machine Learning Helps Identify CHRONO as a Circadian Clock Component. PLoS biology 12(4): e1001840, Apr 2014.
Hughes Michael E, Peeler John, Hogenesch John B, Trojanowski John Q: The Growth and Impact of Alzheimer Disease Centers as Measured by Social Network Analysis. JAMA neurology Feb 2014.
Musiek Erik S, Lim Miranda M, Yang Guangrui, Bauer Adam Q, Qi Laura, Lee Yool, Roh Jee Hoon, Ortiz-Gonzalez Xilma, Dearborn Joshua T, Culver Joseph P, Herzog Erik D, Hogenesch John B, Wozniak David F, Dikranian Krikor, Giasson Benoit I, Weaver David R, Holtzman David M, Fitzgerald Garret A: Circadian clock proteins regulate neuronal redox homeostasis and neurodegeneration. The Journal of clinical investigation 123(12): 5389-400, Dec 2013.
Deckard Anastasia, Anafi Ron C, Hogenesch John B, Haase Steven B, Harer John: Design and analysis of large-scale biological rhythm studies: a comparison of algorithms for detecting periodic signals in biological data. Bioinformatics (Oxford, England) Oct 2013.
Kasowski Maya, Kyriazopoulou-Panagiotopoulou Sofia, Grubert Fabian, Zaugg Judith B, Kundaje Anshul, Liu Yuling, Boyle Alan P, Zhang Qiangfeng Cliff, Zakharia Fouad, Spacek Damek V, Li Jingjing, Xie Dan, Olarerin-George Anthony, Steinmetz Lars M, Hogenesch John B, Kellis Manolis, Batzoglou Serafim, Snyder Michael: Extensive Variation in Chromatin States Across Humans. Science (New York, N.Y.) Oct 2013.
Anton Lauren, Olarerin-George Anthony O, Schwartz Nadav, Srinivas Sindhu, Bastek Jamie, Hogenesch John B, Elovitz Michal A: miR-210 Inhibits Trophoblast Invasion and Is a Serum Biomarker for Preeclampsia. The American journal of pathology Sep 2013.
Shimomura Kazuhiro, Kumar Vivek, Koike Nobuya, Kim Tae-Kyung, Chong Jason, Buhr Ethan D, Whiteley Andrew R, Low Sharon S, Omura Chiaki, Fenner Deborah, Owens Joseph R, Richards Marc, Yoo Seung-Hee, Hong Hee-Kyung, Vitaterna Martha H, Bass Joseph, Pletcher Mathew T, Wiltshire Tim, Hogenesch John, Lowrey Phillip L, Takahashi Joseph S: Usf1, a suppressor of the circadian Clock mutant, reveals the nature of the DNA-binding of the CLOCK:BMAL1 complex in mice. eLife 2: e00426, April 2013.
Karpowicz Phillip, Zhang Yong, Hogenesch John B, Emery Patrick, Perrimon Norbert: The circadian clock gates the intestinal stem cell regenerative state. Cell reports 3(4): 996-1004, Apr 2013.
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Last updated: 07/16/2014
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