Recommended Readings: Gerald Crabtree, Ph.D. Friday February 16th, 2018

Friday Lectures

Friday, February 16th, 2018  3:45 p.m.

Caspary Auditorium

Gerald Crabtree, Ph.D.

David Korn Professor

Pathology and Developmental Biology

Stanford University

Chromatin regulation: Insights from new methods and the genomics of human disease

Recommended Readings:

Empirical Articles

Braun, Simon M. G.; Kirkland, Jacob G.; Chory, Emma J.; et al. (2017). Rapid and reversible epigenome editing by endogenous chromatin regulators. NATURE COMMUNICATIONS. 8

Stanton, Benjamin Z.; Hodges, Courtney; Calarco, Joseph P.; et al. (2017). Smarca4 ATPase mutations disrupt direct eviction of PRC1 from chromatin. NATURE GENETICS. 49 (2): 282-288

Kadoch, Cigall; Williams, Robert T.; Calarco, Joseph P.; et al. (2017). Dynamics of BAF-Polycomb complex opposition on heterochromatin in normal and oncogenic states. NATURE GENETICS. 49 (2): 213-222

Miller, Erik L.; Hargreaves, Diana C.; Kadoch, Cigall; et al. (2017). TOP2 synergizes with BAF chromatin remodeling for both resolution and formation of facultative heterochromatin. NATURE STRUCTURAL & MOLECULAR BIOLOGY. 24 (4): 344-+

Son, Esther Y.; Crabtree, Gerald R. (2014). The Role of BAF (mSWI/SNF) Complexes in Mammalian Neural Development. AMERICAN JOURNAL OF MEDICAL GENETICS PART C-SEMINARS IN MEDICAL GENETICS. 166 (3): 333-349

Hodges, Courtney; Crabtree, Gerald R. (2012). Dynamics of inherently bounded histone modification domains. PNAS. 109 (33): 13296-13301

Hathaway, Nathaniel A.; Bell, Oliver; Hodges, Courtney; et al. (2012). Dynamics and Memory of Heterochromatin in Living Cells. CELL. 149 (7): 1447-1460

Review Papers

Kadoch, Cigall; Crabtree, Gerald R. (2015). Mammalian SWI/SNF chromatin remodeling complexes and cancer: Mechanistic insights gained from human genomics. SCIENCE ADVANCES. 1 (5) 

Ho, Lena; Crabtree, Gerald R. (2010). Chromatin remodelling during development. NATURE. 463 (7280): 474-484

Book Chapter

Lessard, Julie A.; Crabtree, Gerald R. (2010). Chromatin Regulatory Mechanisms in Pluripotency. ANNUAL REVIEW OF CELL AND DEVELOPMENTAL BIOLOGY. Book Series: Annual Review of Cell and Developmental Biology. 26: 503-532

Recommended Readings: Laura Landweber, Ph.D. Friday February 2nd, 2018

Friday Lectures

Friday, February 2nd, 2018  3:45 p.m.

Caspary Auditorium

Laura Landweber, Ph.D.

 Professor

Biochemistry and Molecular Biophysics and Biological Sciences

Columbia University

RNA-programmed genome rearrangement and editing in the ciliate Oxytricha

Recommended Readings:

Science News

Greg Miller. This Bizarre Organism Builds Itself a New Genome Every Time It Has Sex. (2014, Sep 17). Wired

Empirical Articles

Khurana, Jaspreet S.; Clay, Derek M.; Moreira, Sandrine; et al.(2018). Small RNA-mediated regulation of DNA dosage in the ciliate Oxytricha. RNA. 24 (1): 18-29

Lindblad, Kelsi A.; Bracht, John R.; Williams, April E.; et al. (2017). Thousands of RNA-cached copies of whole chromosomes are present in the ciliate Oxytricha during development. RNA. 23 (8): 1200-1208

Chen, Xiao; Bracht, John R.; Goldman, Aaron David; et al. (2014). The Architecture of a Scrambled Genome Reveals Massive Levels of Genomic Rearrangement during Development. CELL. 158 (5): 1187-1198

Swart, Estienne C.; Bracht, John R.; Magrini, Vincent; et al. (2013). The Oxytricha trifallax Macronuclear Genome: A Complex Eukaryotic Genome with 16,000 Tiny Chromosomes. PLOS BIOLOGY. 11 (1).

Goldman, Aaron David; Landweber, Laura F. (2012). Oxytricha as a modern analog of ancient genome evolution. TRENDS IN GENETICS. 28 (8): 382-388

Fang, Wenwen; Wang, Xing; Bracht, John R.; et al. (2012). Piwi-Interacting RNAs Protect DNA against Loss during Oxytricha Genome Rearrangement. CELL. 151 (6): 1243-1255

Nowacki, Mariusz; Haye, Joanna E.; Fang, Wenwen; et al. (2010). RNA-mediated epigenetic regulation of DNA copy number. PNAS. 107 (51): 22140-22144

Nowacki, Mariusz; Vijayan, Vikram; Zhou, Yi; et al. (2008). RNA-mediated epigenetic programming of a genome-rearrangement pathway. NATURE. 451 (7175): 153-U4

Review Papers

Bracht, John R.; Fang, Wenwen; Goldman, Aaron David; et al. (2013). Genomes on the Edge: Programmed Genome Instability in Ciliates. CELL. 152 (3): 406-416

Goldman, Aaron David; Landweber, Laura F. (2012). Oxytricha as a modern analog of ancient genome evolution. TRENDS IN GENETICS. 28 (8): 382-388

Book Chapter

Nowacki, Mariusz; Shetty, Keerthi; Landweber, Laura F. (2011). RNA-Mediated Epigenetic Programming of Genome Rearrangements. ANNUAL REVIEW OF GENOMICS AND HUMAN GENETICS. Book Series: Annual Review of Genomics and Human Genetics. 12: 367-389

Edited Books

Landweber, L. F. and Winfree, E., eds. (2003) Evolution as Computation. Springer Verlag.

Landweber, L. F. and Dobson, A. P., eds. (1999) Genetics and the Extinction of Species: DNA and the Conservation of Biodiversity. Princeton University Press. PLEASE REQUEST FROM MARKUS LIBRARY.

Landweber, L. and Baum, E., eds. (1998) DNA Based Computers II. American Mathematical Society. PLEASE REQUEST FROM MARKUS LIBRARY.