The Sixth Annual BioMaPS/DIMACS Summer School: Chromatin Structure and Gene Regulation

June 9 - 13, 2008
Life Science Auditorium, Life Sciences Building, Busch Campus, Rutgers University

Organizers:

Alexandre Morozov, Rutgers University, morozovp at physics.rutgers.edu

Vasily Studitsky, University of Medicine and Dentistry of New Jersey, studitvm at umdnj.edu

Presented under the auspices of the DIMACS/BioMaPS/MB Center Special Focus on Information Processing in Biology.

This special focus is jointly sponsored by the Center for Discrete Mathematics and Theoretical Computer Science (DIMACS), and the Biological, Mathematical, and Physical Sciences Interfaces Institute for Quantitative Biology (BioMaPS). The National Institutes of Health provides partial funding of the BioMaPS Summer School through the NIH Roadmap for Medical Research, Grant 5 K07 GM72919.

Workshop Program:

June 9, 2008: Chromatin structure and genomic studies of chromatin  

Session Chair: Vincent Pirrotta

Morning:

 9:20 -  9:30  Introduction and welcoming remarks
               Alexandre Morozov & Vasily Studitsky 

 9:30 - 10:30  Transcriptional regulatory mechanisms and epigenetic inheritance
               Kevin Struhl, KEYNOTE SPEAKER, Harvard Medical School

10:30 - 12:00  Intra- and inter-nucleosome interactions of the core histone tail domains
               Jeff Hayes, University of Rochester Medical Center

12:00 -  1:30  Lunch Break

Afternoon:

 1:30 -  2:30  Polycomb mechanisms and genomic programming
               Vincent Pirrotta, Rutgers University

 2:30 -  3:30  Organization of chromatin and the transcription machinery throughout the yeast and fly genomes
               Frank Pugh, Penn State University

 3:30 -  3:45  Break

 3:45 -  4:45  Chromatin-mediated mechanisms for the regulation of genome accessibility in yeast, worms, and humans 
               Jason Lieb, University of North Carolina, Chapel Hill

 
June 10, 2008: Computational modeling of chromatin states

Session Chair: Wilma Olson

Morning: 

 9:30 - 10:00  Introduction to the polymer physics of chromatin
               Swagatam Mukhopadhyay, Rutgers University 

10:00 - 11:00  Epigenetic chromatin silencing
               Anirvan Sengupta, Rutgers University

11:00 - 12:00  Flexing and Folding of nucleosome-bound DNA
               Wilma Olson & Guohui Zheng, Rutgers University

12:00 -  1:30  Lunch Break 

Afternoon: 

 1:30 -  2:30  Biophysical models of chromatin structure and gene regulation
               Alexandre Morozov, Rutgers University

 2:30 -  3:30  A new model for the linker histone binding based on comparative sequence analysis of chicken and yeast nucleosomal DNA
               Victor Zhurkin, NIH

 3:30 -  3:45  Break 

 3:45 -  4:45  Prediction of nucleosome positions 
               Guocheng Yuan, Harvard School of Public Health


June 11, 2008: Histone modifications and signaling

Session Chair: Sergei Grigoryev

Morning: 

 9:30 - 11:00  Inter-nucleosome interactions in chromatin higher-order packing
               Sergei Grigoryev, Penn State University College of Medicine

11:00 - 12:00  The SAGA of Histone Modifications 
               Patrick Grant, University of Virginia

12:00 -  1:30  Lunch Break

Afternoon:

 1:30 -  2:30  Diversity in Chromatin Docking Interactions of Chromodomains
               Sepideh Khorasanizadeh, University of Virginia

 2:30 -  3:30  Mix and Match: Landscaping Chromatin during Transcription 
               Thomas Kusch, Rutgers University

 3:30 -  5:30  Poster Session
 

June 12, 2008: Chromatin remodeling and transitions

Session Chair: David Clark

Morning:

 9:30 - 11:00  Gene Activation in Yeast: Chromatin Remodeling and Nucleosome Dynamics
               David Clark, NIH

11:00 - 12:00  Mechanism of nucleosome survival and chromatin remodeling during transcription by Pol II
               Vasily Studitsky, UMDNJ

12:00 -  1:30  Lunch Break

Afternoon:

 1:30 -  2:30  Mechanism of ATP-dependent chromatin remodeling: lessons from ISW2 and SWI/SNF
               Blaine Bartholomew, Southern Illinois University School of Medicine

 2:30 -  3:30  Histone Modification, Deposition, and Turnover
               Paul Kaufman, University of Massachusetts Medical School

 3:30 -  3:45  Break

 3:45 -  4:45  Functional importance of Histone H4K20 methylation
               Ruth Steward, Rutgers University


June 13, 2008: Programming functional chromatin states

Session Chair: Gary Felsenfeld

Morning:

 9:30 - 10:30  The establishment and maintenance of chromatin boundaries
               Gary Felsenfeld, NIH 

10:30 - 10:45  Break

10:45 - 11:45  The Rise and Fall of Models for Heterochromatin Establishment
               Marc Gartenberg, UMDNJ 

11:45 - 12:45  ATP-dependent chromatin assembly
               Dmitry Fyodorov, Albert Einstein College of Medicine 

Afternoon: 

12:45 -  1:00  Closing Remarks
               Alexandre Morozov & Vasily Studitsky: Closing Remarks

 

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