Recommended Readings: Bing Ren, Ph.D., Friday May 19th, 2017

Friday Lectures

Friday, May 19, 2017  3:45 p.m.

Caspary Auditorium

Bing Ren, Ph.D.

Professor of Cellular and Molecular Medicine and Director of the Center for Epigenomics

University of California, San Diego

Organization and Regulation of the Human Genome

Recommended Readings:

https://www.bcm.edu/news/genetics/nih-funds-effort-map-genome-folding

https://www.bcm.edu/news/genome-sequencing/scientist-assemble-genome-of-zika-virus

Schmitt, Anthony D.; Hu, Ming; Ren, Bing (2016). Genome-wide mapping and analysis of chromosome architecture. NATURE REVIEWS MOLECULAR CELL BIOLOGY. 17(12): 743-755

Dixon, Jesse R.; Gorkin, David U.; Ren, Bing (2016). Chromatin Domains: The Unit of Chromosome Organization. MOLECULAR CELL. 62(5): 668-680

Zuin, Jessica; Dixon, Jesse R.; van der Reijden, Michael I. J. A.; et al. (2014). Cohesin and CTCF differentially affect chromatin architecture and gene expression in human cells. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 111(3): 996-1001

Smallwood, Andrea; Ren, Bing (2013). Genome organization and long-range regulation of gene expression by enhancers. CURRENT OPINION IN CELL BIOLOGY. 25(3): 387-394

Dunham, Ian; Kundaje, Anshul; Aldred, Shelley F.; et al. (2012). An integrated encyclopedia of DNA elements in the human genome. NATURE. 489(7414): 57-74

 

Recommended Readings: Maria Barna Ph.D. Friday December 9, 2016

Friday Lectures

Friday, December 9, 2016   3:45 p.m.

Caspary Auditorium

Maria Barna, Ph.D.

Assistant Professor,

Departments of Developmental Biology and Genetics at Stanford University

Specialized Ribosomes:

A New Frontier in Gene Regulation, Organismal Biology, & Evolution

Recommended Readings:

Xue, Shifeng; Barna, Maria.   Specialized ribosomes: a new frontier in gene regulation and organismal biology.  NATURE REVIEWS MOLECULAR CELL BIOLOGY    13( 6):355-369     JUN 2012

Amunts, Alexey; Brown, Alan; Bai, Xiao-chen; et al.  Structure of the Yeast Mitochondrial Large Ribosomal Subunit.  SCIENCE   343(6178):1485-1489      MAR 28 2014

Xue, Shifeng; Tian, Siqi; Fujii, Kotaro; et al.  RNA regulons in Hox 5 ‘ UTRs confer ribosome specificity to gene regulation. NATURE   517(7532):33-U55   JAN 1 2015

Wu, XQ; Iyengar, P; RajBhandary, UL.   Ribosome-initiator tRNA complex as an intermediate in translation initiation in Escherichia coli revealed by use of mutant initiator tRNAs and specialized ribosomes. EMBO JOURNAL    15(17):4734-4739  SEP 2 1996

Shi, Zhen; Barna, Maria   Trransiating the Genome in Time and Space: Specialized Ribosomes, RNA. Regulons, and RNA-Binding Proteins. ANNUAL REVIEW OF CELL AND DEVELOPMENTAL BIOLOGY, VOL 31   Book Series: Annual Review of Cell and Developmental Biology   V. 31: 31-+    2015

Yadav, Anupama; Radhakrishnan, Aparna; Panda, Anshuman; et al. The Modular Adaptive Ribosome.   PLOS ONE   11(11): Article Number: e0166021    NOV 3 2016

 

Recommended Readings: Bonnie Bassler, Ph.D.

Friday Lecture Series

Manipulating Quorum Sensing to Control Bacterial Pathogenesis

Bonnie Bassler, Ph.D., Squibb Professor in Molecular Biology and director,

Council on Science and Technology,

Princeton University

October 11, 2013

3:45 p.m.-5:00 p.m. (Refreshments, 3:15 p.m., Abby Lounge)

Caspary Auditorium

Recommended Readings

Bassler, B., & Vogel, J. (2013). Bacterial regulatory mechanisms: The gene and beyond. Current Opinion in Microbiology, 16(2), 109-111

Chen, G., Swem, L., Swem, D., Stauff, D., O’Loughlin, C., Jeffrey, P., . . . Hughson, F. (2011). A strategy for antagonizing quorum sensing. Molecular Cell, 42(2), 199-209

Stauff, D. L., & Bassler, B. L. (2011). Quorum sensing in chromobacterium violaceum: DNA recognition and gene regulation by the CviR receptor. Journal of Bacteriology, 193(15), 3871-3878

Swem, L. R., Swem, D. L., O’Loughlin, C. T., Gatmaitan, R., Zhao, B., Ulrich, S. M., & Bassler, B. L. (2009). A quorum-sensing antagonist targets both membrane-bound and cytoplasmic receptors and controls bacterial pathogenicity. Molecular Cell, 35(2), 143-153

Teng, S. -., Schaffer, J. N., Tu, K. C., Mehta, P., Lu, W., Ong, N. P., . . . Wingreen, N. S. (2011). Active regulation of receptor ratios controls integration of quorum-sensing signals in vibrio harveyi. Molecular Systems Biology, 7

 

Recommended Readings: Jeffrey M. Friedman M.D., Ph.D.

Monday Lectures

Leptin and the Homeostratic Control of

Food Intake and Body Weight

Jeffrey M. Friedman M.D., Ph.D.

Howard Hughes Medical Institute

The Rockefeller University

4 p.m.  (refreshments at 3:45)

Monday, December 8, 2008

Welch Hall Level Two

Recommended Review:

Morrison, Christopher D. and Hans-Rudolf Berthoud.  2007.  Neurobiology of nutrition and obesity. Nutrition Reviews.  65(12):517-534.

Related Articles:

Rodenheffer, Matthew S.; Birsoy, Kivanc; and Jeffrey M. Friedman.  2008.   Identification of white adipocyte progenitor cells in vivo.   Cell. 135(2):240-249.

 

Birsoy, Kivanc; Chen, Zhu; and Jeffrey M. Friedman.  2008.  Transcriptional regulation of adipogenesis by KLF4.  Cell Metabolism.  7(4):339-347.  

 

Berthoud, Hans-Rudolf.  2007.  Interactions between the “cognitive” and “metabolic” brain in the control of food intake. Physiology & Behavior.  91(5):486-498.

 

Ruano, G.; J.W.  Goethe, et al.  2007.  Physiogenomic comparison of weight profiles of olanzapine- and risperidone-treated patients.  Molecular Psychiatry.  12(5):474-482.

 

Berthoud, Hans-Rudolf.  2006. Homeostatic and non-homeostatic pathways involved in the control of food intake and energy balance.  Obesity.  14(Suppl 5):197-200.    Request article from Markus Library.