Contents

Symposium Participants

Foreword

Gene Control



Imaging Transcription: Past, Present, and Future

Robert A. Coleman, Zhe Liu, Xavier Darzacq, Robert Tjian, Robert H. Singer, and Timothée Lionnet

Visualizing the HoxD Gene Cluster at the Nanoscale Level

Pierre J. Fabre, Alexander Benke, Suliana Manley, and Denis Duboule

Transcriptional Enhancers: Bridging the Genome and Phenome

Bing Ren and Feng Yue

Regulatory Principles Governing Tissue Specificity of Developmental Enhancers

Emma K. Farley, Katrina M. Olson, and Michael S. Levine

The Importance of Controlling Transcription Elongation at Coding and Noncoding RNA Loci

Benjamin S. Scruggs and Karen Adelman

Chromatin Domains and Nuclear Position



Regulatory Domains and Their Mechanisms

Nezha S. Benabdallah and
 Wendy A. Bickmore

Large-Scale Chromatin Structure-Function Relationships during the Cell Cycle and Development: Insights from Replication Timing

Vishnu Dileep, Juan Carlos Rivera-Mulia, Jiao Sima, and David M. Gilbert

Prenucleosomes and Active Chromatin

Mai T. Khuong, Jia Fei, Haruhiko Ishii, and James T. Kadonaga

HIPMap: A High-Throughput Imaging Method for Mapping Spatial Gene Positions

Sigal Shachar, Gianluca Pegoraro, and Tom Misteli

Genome Organization and Chromosome Architecture

Giorgio Bernardi

Genome Stability



A System to Study Aneuploidy In Vivo

Sarah J. Pfau and Angelika Amon

Resolution of Recombination Intermediates: Mechanisms and Regulation

Stephen C. West, Miguel G. Blanco, Ying Wai Chan, Joao Matos, Shriparna Sarbajna, and Haley D.M. Wyatt

21st Century Genetics: Mass Spectrometry of Yeast Telomerase

Kah Wai Lin and Virginia A. Zakian

From Mutational Mechanisms in Single Cells to Mutational Patterns in Cancer Genomes

Cheng-Zhong Zhang and David Pellman

The Evolution of Tumors in Mice and Humans with Germline p53 Mutations

Arnold J. Levine, Chang S. Chan, Crissy Dudgeon, Anna Puzio-Kuter, and Pierre Hainaut

Germ Cells and Early Development



Mechanism and Reconstitution In Vitro of Germ Cell Development in Mammals

Kazuki Kurimoto and Mitinori Saitou

Erase-Maintain-Establish: Natural Reprogramming of the Mammalian Epigenome

Milena Leseva, Barbara B. Knowles, Daniel M. Messerschmidt, and Davor Solter

Regulation of Reprogramming and Cellular Plasticity through Histone Exchange and Histone Variant Incorporation

Xavier Gaume and Maria-Elena Torres-Padilla

ZFP57 and the Targeted Maintenance of Postfertilization Genomic Imprints

Nozomi Takahashi, Dionne Gray, Ruslan Strogantsev, Angela Noon, Celia Delahaye, William C. Skarnes, Peri H. Tate, and Anne C. Ferguson-Smith

Embryonic Stem Cells and Development



Biological Networks Governing the Acquisition, Maintenance, and Dissolution of Pluripotency: Insights from Functional Genomics Approaches

Kevin Andrew Uy Gonzales and Huck-Hui Ng

Monitoring Dynamics of DNA Methylation at Single-Cell Resolution during Development and Disease

Yonatan Stelzer and Rudolf Jaenisch

Perturbing Chromatin Structure to Understand Mechanisms of Gene Expression

Caroline R. Bartman and Gerd A. Blobel

Mechanisms Underlying the Selection and Function of Macrophage-Specific Enhancers

Verena M. Link, David Gosselin, and Christopher K. Glass

Metabolism and Signaling



Clock-Talk: Interactions between Central and Peripheral Circadian Oscillators in Mammals

Ueli Schibler, Ivana Gotic, Camille Saini, Pascal Gos, Thomas Curie, Yann Emmenegger, Flore Sinturel, Pauline Gosselin, Alan Gerber, Fabienne Fleury-Olela, Gianpaolo Rando, Maud Demarque, and Paul Franken

Dissecting the Rev-erbα Cistrome and the Mechanisms Controlling Circadian Transcription in Liver

Bin Fang and Mitchell A. Lazar

Modulating the Genomic Programming of Adipocytes

Anne Loft, Søren Fisker Schmidt, and Susanne Mandrup

Targeting Transcriptional and Epigenetic Reprogramming in Stromal Cells in Fibrosis and Cancer

Nasun Hah, Mara H. Sherman, Ruth T. Yu, Michael Downes, and Ronald M. Evans

Regulation of RORγt in Inflammatory Lymphoid Cell Differentiation

Wendy Huang and Dan R. Littman

Evolution



How Transcription Networks Evolve and Produce Biological Novelty

Isabel Nocedal and Alexander D. Johnson

The African Turquoise Killifish: A Model for Exploring Vertebrate Aging and Diseases in the Fast Lane

Itamar Harel and Anne Brunet

Transposable Elements, Polydactyl Proteins, and the Genesis of Human-Specific Transcription Networks

Didier Trono

Dorcas Cummings Lecture



Svante Pääbo

Conversations at the Symposium



Geneviève Almouzni



Angelika Amon



Julius Brennecke



Emmanuelle Charpentier



Job Dekker



Titia de Lange



Jennifer Doudna



Denis Duboule



Ron Evans



Anne Ferguson-Smith



Edith Heard



David Kingsley



Arnold Levine



Susan Lindquist



Dan Littman



Richard Morimoto



David Page



Wolf Reik



Bing Ren



Ueli Schibler



Davor Solter



Alexander Tarakhovsky



Joanna Wysocka



Rick Young

Author Index

Subject Index