Recommended Readings: Jennifer A. Zallen Ph.D. Friday November 11, 2016

Friday Lectures

Frfday, November 11, 2016   3:45 p.m.

Caspary Auditorium

Jennifer A. Zallen, Ph.D.

HHMI Investigator / Member, Sloan Kettering Institute

Signals and Forces that Control Multicellular

Organization in the Embryo

Recommended Readings:

Mao, Qiyan; Lecuit, Thomas    Mechanochemical Interplay Drives Polarization in Cellular and Developmental Systems.  Book Series: Current Topics in Developmental Biology   Volume:116   Pages: 633-+    2016   Edited by: Wassarman, PM

Gouti, Mina; Metzis, Vicki; Briscoe, James.  The route to spinal cord cell types: a tale of signals and switches.TRENDS IN GENETICS   31(6): 282-289   Published: JUN 2015

Uriu, Koichiro; Morelli, Luis G.; Oates, Andrew C.  Interplay between intercellular signaling and cell movement in development.  SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY    35: 66-72      NOV 2014

Neijts, Roel; Simmini, Salvatore; Giuliani, Fabrizio; et al   Region-Specific Regulation of Posterior Axial Elongation During Vertebrate Embryogenesis.  DEVELOPMENTAL DYNAMICS   243(1. Special Issue: SI): 88-98    JAN 2014

 Zallen, Jennifer A.; Blankenship, J. Todd   Multicellular dynamics during epithelial elongation.  SEMINARS IN CELL & DEVELOPMENTAL BIOLOGY.   19(3): 263-270 : JUN 2008

Recommended Readings: Marcello Magnasco Ph.D. Monday October 31, 2016

Monday Lectures

Monday October 31, 2016   3:45 p.m.

Caspary Auditorium

Marcello Magnasco, Ph.D.

Professor, Mathematical Physics

The Rockefeller University

Recommended Readings:

Janik VM, and Slater PJB.  Vocal Learning in Mammals.  Advances in the Study of Behavior,   26:59-99     1997    Request through Markus Library at

Reiss D, and McCowan B.  Spontaneous Vocal Mimicry and Production by Bottle-nosed Dolphins (Tursiops truncatus) – evidence for vocal learning.   Journal of Comparative Psychology   107(3):301-312    Sept  1997

McCowan B, Hanser SF, and Doyle LR.  Quantitative Tools for Comparing Animal Communication Systems: information theory applied to bottlenose dolphin whistle repertoires.  Animal Behavior.  57:409-419    Feb 1999

Janik VM.  Cetacean Vocal Learning and Communication.  Current Opinion in Neurobiology.  28:60-65    Oct 2014

Luis AR, Couchinho MN, and dos Santos ME.   Quantitative Analysis of Pulsed Signals Emitted by Wild Bottlenose Dolphins.  PLoS One   11(7):e0157781      July 2016

Gruden P, White PR, Oswald JN, Barkley Y, Cerchio S, Lammers M,and  Baumann-Pickering S.   Differences in Oscillatory Whistles Produced by Spinner (Stenella longirostris) and Pantropical Spotted (Stenella attenuata) Dolphins.   Marine Mammal Science  32:520-534    April 2016

Recommended Readings: Nicole King Ph.D. October 7 2016

Friday Lecture Series

Friday October 7, 2016   3:45 p.m.

The Fairfield Osborn Memorial Lecture

Caspary Auditorium

Nicole King

Professor, and HHMI Investigator

Dept.of Molecular and Cell Biology, Division of Genetics, Genomics and Development

University of California Berkeley

Bacteria as Master Regulators and Aphrodisiacs

Recommended Readings:

Anderson, Douglas P.; Whitney, Dustin S.; Hanson-Smith, Victor; et al.  Evolution of an ancient protein function involved in organized multicellularity in animals. ELIFE                   5: e10147    JAN 7 2016

Alegado, Rosanna A.; King, Nicole  Bacterial Influences on Animal OriginsCOLD SPRING HARBOR PERSPECTIVES IN BIOLOGY    6(11): a016162  NOV 2014

King, Nicole.  Evolutionary Transitions to Multicellular Life Principles and Mechanisms Forrward.  EVOLUTIONARY TRANSITIONS TO MULTICELLULAR LIFE: PRINCIPLES AND MECHANISMS   Book Series:Advances in Marine Genomics   Volume: 2   Pages: V-VI    2015

King, Nicole; Mueller, Susann.  Environmental microbiology: Revisiting the physiology of microorganisms on the single cell scale. CURRENT OPINION IN MICROBIOLOGY     Volume: 25   Pages: V-VI   Published: JUN 2015

Recommended Readings: Uri Alon Ph.D. October 28 2016

Friday Lecture Series

Friday  October 28  2016    3:45  p.m.

Caspary Auditorium

Uri Alon

Professor, Department of Molecular Cell Biology

Weizmann Institute of Science

Evolutionary Trade Offs and the Geometry of Phenotype Space

Recommended Readings:

Keren, Leeat; Hausser, Jean; Lotan-Pompan, Maya; et al. Massively Parallel Interrogation of the Effects of Gene Expression Levels on Fitness. CELL    166(5):1282-+  AUG 25 2016

Korem, Yael; Szekely, Pablo; Hart, Yuval; et al. Geometry of the Gene Expression Space of Individual Cells. PLOS COMPUTATIONAL BIOLOGY    11(7):e1004224   JUL 2015

Tendler, Avichai; Mayo, Avraham; Alon, Uri  Evolutionary tradeoffs, Pareto optimality and the morphology of ammonite shells. BMC SYSTEMS BIOLOGY  V 9: article number: 12   MAR 7 2015

Szekely, Pablo; Sheftel, Hila; Mayo, Avi; et al. Evolutionary Tradeoffs between Economy and Effectiveness in Biological Homeostasis Systems.  PLOS COMPUTATIONAL BIOLOGY.   9(8): e1003163    AUG 2013

Sheftel, Hila; Shoval, Oren; Mayo, Avi; et al. The geometry of the Pareto front in biological phenotype space. ECOLOGY AND EVOLUTION.   3(6):1471-1483    JUN 2013

Recommended Readings: Rebecca Saxe Ph.D. October 21, 2016

Friday Lecture Series

Friday October 21, 2016   3:45 p.m.

Caspary Auditorium

Rebecca Saxe, Ph.D.

Professor, MIT, Brain and Cognitive Sciences

It’s the Thought that counts: Progress in understanding the 

Neural basis of Theory of Mind

Recommended Readings:

 Chakroff, Alek; Dungan, James; Koster-Hale, Jorie; et al.  When minds matter for moral judgment: intent information is neurally encoded for harmful but not impure acts. SOCIAL COGNITIVE AND AFFECTIVE NEUROSCIENCE   11(3):476-484    MARCH 2016

Jacoby, Nir; Bruneau, Emile; Koster-Hale, Jorie; et al.  Localizing Pain Matrix and Theory of Mind networks with both verbal and non-verbal stimuli. NEUROIMAGE  126:39-48     FEB 1 2016

Deen, Ben; Koldewyn, Kami; Kanwisher, Nancy; et al.  Functional Organization of Social Perception and Cognition in the Superior Temporal Sulcus. CEREBRAL CORTEX    25(11):4596-4609     NOV 2015

Bruneau, Emile G.; Cikara, Mina; Saxe, Rebecca.  Minding the Gap: Narrative Descriptions about Mental States Attenuate Parochial Empathy.  PLOS ONE                 10:e0140838     OCT 27 2015

Andrews-Hanna, Jessica R.; Saxe, Rebecca; Yarkoni, Tal   Contributions of episodic retrieval and mentalizing to autobiographical thought: Evidence from functional neuroimaging, resting-state connectivity, and fMRI meta-analyses. NEUROIMAGE   91:324-335   MAY 1 2014

Koster-Hale, Jorie; Saxe, Rebecca; Dungan, James; et al.  Decoding moral judgments from neural representations of intentions. PNAS   110(14): 5648-5653   APRIL 2 2013

Recommended Readings: Ole Kiehn Ph.D. October 14, 2016

Friday Lecture Series

Friday October 14, 2016   3:45 p.m.

Caspary Auditorium

Ole Kiehn, Ph.D.

Professor, Mammalian Locomotor Laboratory,

Dept. of Neuroscience, Karolinska Institut

Deciphering the Functional Organization of Neuronal Circuits

Controlling Locomotion

Recommended Readings:

Kiehn, Ole.  Decoding the organization of spinal circuits that control locomotion. NATURE REVIEWS NEUROSCIENCE    17(4): 224-238    APR 2016

Bouvier, Julien; Caggiano, Vittorio; Leiras, Roberto; et al. Descending Command Neurons in the Brainstem that Halt Locomotion. CELL   163(5): 1191-1203    NOV 19 2015

Patrick, Susan K.; Noah, J. Adam; Yang, Jaynie F.   Interlimb Coordination in Human Crawling Reveals Similarities in Development and Neural Control With Quadrupeds.JOURNAL OF NEUROPHYSIOLOGY   101(2): 603-613   FEB 2009

Stuart, Douglas G.; Hultborn, Hans. Thomas Graham Brown (1882-1965), Anders Lundberg (1920-), and the neural control of stepping. BRAIN RESEARCH REVIEWS  59(1) : 74-95   NOV 2008

Recommended Readings: Jesse Ausubel M.A. October 10, 2016

Monday Lecture Series

Monday October 10, 2016   4 p.m.

Carson Family Auditorium

Jesse Ausubel, M.A.

Director and Senior Research Associate

Program for the Human Environment, The Rockefeller University

Nature Rebounds

Recommended Readings:

Donlan, J; Berger, J; Bock, CE; et al.  Re-wilding North America. NATURE   436 (7053):913-914    AUG 18 2005

Ausubel, Jesse H. and Paul E. Waggoner.  Dematerialization: Variety, caution, and persistence.  PNAS.   105(35):12774-12779.   June 2008.

Pearce, F and J. Ausubel.  Be green, think big. NEW SCIENTIST   189( 2536): 44-46 JAN 28 2006

Ausubel, Jesse H. and Paul E. Waggoner.  Assessing environmental changes in grasslandsSCIENCE  299(5614): 1844-1844      MAR 21 2003

Kauppi, Pekka E.; Ausubel, Jesse H.; Fang, Jingyun; et al.  Returning forests analyzed with the forest identity.  PNAS.  103(46): 17574-17579     NOV 14 2006

Recommended Readings: Michael Levine Ph.D. Sept 30, 2016

Friday Lecture Series

Norton Zinder Lecture

Michael Levine, Ph.D.

Director, Lewis-Sigler Institute for Integrative Genomics, Princeton Univ.

Anthony B. Evnin Professor, Dept Molecular Biology, Princeton Univ.

Visualization and evolution of transcriptional enhancers

Recommended Readings:

Bothma, J.P., Garcia, H.G., Ng, S., Perry, M.W., Gregor, T., and Levine, M. (2015). Enhancer additivity and nonadditivity are determined by enhancer strength in the Drosophila embryo. eLife 4, 07956.

Farley, E.K., Olson, K.M., Zhang, W., Brandt, A.J., Rokhsar, D.S., and Levine, M. (2015). Suboptimization of developmental enhancers. Science 350, 325-328.

Fukaya, T., Lim, B., and Levine, M. 2016. Enhancer control of transcriptional bursting. Cell 166, 358-368.

Bothma, J., Garcia, H., Gavin, S., Esposito, E., Gregor, T., and Levine, M. (2014). Dynamic regulation of eve stripe 2 expression reveals transcriptional bursts in living Drosophila embryos. PNAS 111, 10598-10603.

Evans, Nicole C.; Swanson, Christina I.; Barolo, Scott.  Sparkling Insights into Enhancer Structure, Function, and Evolution.  TRANSCRIPTIONAL SWITCHES DURING DEVELOPMENT   Book Series: Current Topics in Developmental Biology .  98: 97-120   2012

Gordon, Kacy L.; Ruvinsky, Ilya.  Tempo and Mode in Evolution of Transcriptional Regulation.  PLOS GENETICS.   8(1): e1002432    2012

Recommended Readings: Gaby Maimon, Ph.D., Sept 23, 2016

Friday Lecture Series

Head shot of Gaby Maimon

Gaby Maimon, Ph.D.

Assistant Professor
Laboratory of Integrative Brain Function

Quantitative Neural Computations in Behaving Drosophila

Recommended Readings:

Kim, A.J. et al. Cellular evidence for efference copy in Drosophila visuomotor processing. Nature Neuroscience. 18, 1247–1255 (2015).

Rien, D.; kern, R. and R. Kurtz.  Octopaminergic modulation of a fly visual motion-sensitive neuron during stimulation with naturalistic optic flow.  Frontiers in Bahavioral Neuroscience. 7, 155 (2013)

Maimon, G. Modulation of visual physiology by behavioral state in monkeys, mice, and flies. Current Opinions in Neurobiology. 21, 559–564 (2011).

Rosner, R. and A. K. Warzecha.  Relating neuronal to behavioral performance: variability of optomotor responses in the blowflyPLoS One.   6, 10:e26886 (2011)

Recommended Readings: Richard Lifton, M.D., Ph.D., June 10

Friday Lecture Series
Friday, June 10, 2016
3:45 p.m., Caspary Auditorium

Richard Lifton, M.D., Ph.D.
President-elect, The Rockefeller University
Sterling Professor of Genetics and Professor of Medicine (Nephrology),
Chair, Department of Genetics, Yale University
Investigator, Howard Hughes Medical Institute

From Genes and Genomes to Biology and Health

Recommended Readings:

Choi, M., Scholl, U. I., Ji, W., Liu, T., Tikhonova, I. R., Zumbo, P., … & Lifton, R. O. (2009). Genetic diagnosis by whole exome capture and massively parallel DNA sequencing. Proceedings of the National Academy of Sciences, 106(45), 19096-19101. doi: 10.1073/pnas.0910672106.

Ji, W., Foo, J. N., O’Roak, B. J., Zhao, H., Larson, M. G., Simon, D. B., … & Lifton, R. P. (2008). Rare independent mutations in renal salt handling genes contribute to blood pressure variation. Nature Genetics, 40(5), 592-599. doi: 10.1038/ng.118.

Lifton, R. P., Gharavi, A. G., & Geller, D. S. (2001). Molecular mechanisms of human hypertension. Cell, 104(4), 545-556. doi:10.1016/S0092-8674(01)00241-0

Shimkets, R. A., Warnock, D. G., Bositis, C. M., Nelson-Williams, C., Hansson, J. H., Schambelan, M., … & Lifton, R. O. (1994). Liddle’s syndrome: heritable human hypertension caused by mutations in the β subunit of the epithelial sodium channel. Cell, 79(3), 407-414. doi:10.1016/0092-8674(94)90250-X