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Chromatin Club Bay Area ‐ Online Seminar Series

The Chromatin Club Bay Area was founded to foster a scientific community between Stanford, Berkeley, UC San Francisco, UC Santa Cruz, and UC Davis. We organize monthly online seminars during which three scientists from our institutions present their work, and in person meetings each quarter to facilitate networking between researchers.

The scientific focus of the Chromatin Club Bay Area is broad and aims at bridging basic and translational epigenetic research.

Attendance is free of charge, but registration is required.

Organizing Committee:

• Stanford: Capucine Van Rechem, Ashby Morrison, Serena Sanulli
• UC Berkeley: Gary Karpen, James Nuñez
• UCSF: Abby Buchwalter, Bassem Al-Sady
• UCSC: Karen Miga, Hinrich Boeger, Amit Behera
• UC Davis: Janine LaSalle, Paul Knoepfler
• Genentech, Inc.: Bence Daniel

Upcoming Event Details

Date: TBA

Time: TBA

Previous Event Details

Date: August 22, 2024

Time: 12:00 p.m. (PT) / 3:00 p.m. (ET)

Featured Speakers:

• Oran Gutierrez, Ph.D. – Graduate Student, Janine LaSalle Lab, UC Davis
  Integration of CTCF Loops, Methylome, and Transcriptome in Differentiating LUHMES as a Model for Imprinting Dynamics of the 15q11-q13 Locus in Human Neurons
• Gali Bai, Ph.D. – Graduate Student, Angela Brooks Lab, UC Santa Cruz
  TBA

Date: June 27, 2024

Time: 12:00 p.m. (PT) / 3:00 p.m. (ET)

Invited Speakers:

• Jackie Tang, Ph.D. – Postdoc, Winslow Lab, Stanford University
  A Functional Map of Epigenetic Regulation in Lung Tumorigenesis in vivo Uncovers Coordinated Tumor Suppression by HBO1 and MLL1
• Jason Brickner - Ph.D. – Professor of Molecular Biosciences, Northwestern University (Currently on sabbatical at UCSF)
  The Nuclear Pore Complex Regulates Transcription and Epigenetic States

Date: April 25, 2024

Time: 12:00 p.m. (PT) / 3:00 p.m. (ET)

Invited Speakers:

• Anastasia Hains, Ph.D. – Postdoc, Van Rechem Lab, Stanford University
• Colette Felton - Ph.D. Candidate– Brooks Lab, UC Santa Cruz

Date: January 25, 2023

Time: 12:00 p.m. (PT) / 3:00 p.m. (ET)

Invited Speakers:

• Akanksha Thawani, Ph.D. – Postdoctoral Fellow, Nogales & Collins Labs, UC Berkeley
  "Genetic Architects: How the LINE-1 Transposon Crafts Half of Your Genome"
• Yatian Yang, Ph.D. – Hongwu Chen Lab, UC Davis
  "A Circadian Regulator Controls Chromatin Bivalency Resolution in Promoting Tumor Lineage Plasticity"

Date: October 26, 2023

Time: 12:00 p.m. (PT) / 3:00 p.m. (ET)

Invited Speakers:

• Upasna Sharma, Ph.D. – Assistant Professor, UC Santa Cruz
  "Sperm Small RNA-mediated Intergenerational Epigenetic Inheritance"
• Riki Terui, Ph.D. – Post Doctoral Fellow, Gheorghe Chistol Lab, Stanford University
  "The Mechanism of Bidirectional DNA Replication Initiation in Metazoa"
• Varsha Rajshekar, Ph.D. – Post Doctoral Fellow, Karpen Lab, UC Berkeley
  "Affinity Hierarchies and Amphiphilic Proteins Underlie the Co-assembly of Nucleolar and Heterochromatin Condensates"

Date: August 24, 2023

Time: 12:00 p.m. (PT) / 3:00 p.m. (ET)

Invited Speakers:

• Sarah Wang, Ph.D. – Graduate Student, Hwang Lab, UC Davis
  Whole Genome Bisulfite Sequencing of Human and Mouse Organoid Models of PDAC Progression Identifies Stage- and Subtype-specific DNA Methylation Signatures
• Sanalkumar Rajendran, Ph.D. – Research Scientist, Genentech
  Connecting Genome Structure to Function: How 3D Enhancer Hubs Driven by an Oncogenic TF Shape Tumor Cell Identity

Date: July 27, 2023

Time: 12:00 p.m. (PT) / 3:00 p.m. (ET)

Invited Speakers:

• Mohammed Andres Mostajo Radji, Ph.D. - Assistant Research Scientist, UC Santa Cruz
  A Data-efficient Deep Learning Tool for scRNA-Seq Label Transfer in Neuroscience
• Trinity Cookis, Ph.D. Candidate - Eva Nogales Lab, UC Berkeley
  Structural Basis for PRC2 Inhibition by Active Transcription Histone Posttranslational Modifications
• Seungsoo Kim - Postdoc, Wysocka Lab, Stanford University
  DNA-guided Transcription Factor Cooperativity Shapes Face and Limb Mesenchyme

Date: June 22, 2023

Time: 12:00 p.m. (PT) / 3:00 p.m. (ET)

Invited Speakers:

• Carlos Diaz-Castillo, Ph.D. - Chamorro-Garcia Lab, UC Santa Cruz
  On the Developmental and Intergenerational Propagation of Environmental Perturbations of the Heterochromatin/Euchromatin Compartmentalization
• Kate Morse, Ph.D. Candidate - Elcin Unal Lab, UC Berkeley
  Regulation of Transcriptional Interference by the Swi/Snf Complex in Yeast
• Emily Wong, Ph.D. - Postdoctoral Fellow, Narilkar Lab, UC San Francisco
  HP1a, Nucleic Acids, and the Universal Quest for Connection

Date: May 25, 2023

Time: 12:00 p.m. (PT) / 3:00 p.m. (ET)

Invited Speakers:

• Bo He - Jiangbin Ye Lab, Stanford University
  Epigenetic Priming: The Way that Targets Tumor Heterogeneity to Promote Vitamin D Therapy in Pancreatic Ductal Adenocarcinoma
• Grey Monroe - Assistant Professor, UC Davis
  Mechanisms, Origins, and Consequences of Epigenome-recruited DNA Repair Systems in Plants
• Coline Arnould - Nadav Ahituv Lab, UC San Francisco
  Impact of DNA Damage on 3D Chromatin Organization: Implication in Neurodegenerative Diseases

Date: April 27, 2023

Time: 12:00 p.m. – 1:30 p.m. (PT) / 3:00 p.m. – 4:30 p.m. (ET)

Invited Speakers:

• Lea Kiefer - Daniele Canzio Lab, UC San Francisco
  Cohesin Dynamics Define Protocadherin Isoform Diversity Required for Brain Wiring

Special Guest Speaker:

• Sihem Cheloufi, Ph.D. – Assistant Professor, UC Riverside

Date: October 27, 2022

Time: 12:00 p.m. – 1:30 p.m. (PT) / 3:00 p.m. – 4:30 p.m. (ET)

Invited Speakers:

• Bradley Colquitt, Assistant Professor MCD
  Gene Regulatory Mechanisms of Birdsong Neural Circuit Development
• Albert Li - Jiangbin Ye Lab, Stanford University
  Metabolic and Epigenetic Reprogramming During Breast Cancer Progression

Date: September 22, 2022

Time: 12:00 p.m. – 1:30 p.m. (PT) / 3:00 p.m. – 4:30 p.m. (ET)

Invited Speakers:

• Scott Nanda - Ramani Lab, UC San Francisco
  Sensitive Multimodal Profiling of Native DNA by Transposase-mediated Single-molecule Sequencing.
• Ben Williams - Assistant Professor, UC Berkeley
  Dynamic DNA Methylation Turnover in Exons is Associated With a Regulatory Chromatin State.
• Ashby Morrison - Associate Professor, Stanford University
  New Genome Stability Mechanisms of Oncogene-Induced Senescence.

Date: August 25, 2022

Time: 12:00 p.m. – 1:30 p.m. (PT) / 3:00 p.m. – 4:30 p.m. (ET)

Invited Speakers:

• Rachel Klein - Knoepfler Lab, UC Davis
  Mutant Histone H3.3 K27M Alters the Chromatin Landscape in Diffuse Midline Glioma
• Muryam Gourdet - Narlikar Lab, UC San Francisco
  A Hexasome is the Preferred Substrate for the INO80 Chromatin Remodeling Complex, Allowing Versatility of Function
• Ramendra Saha - Associate Professor, UC Merced
  Neuronal SWI/SNF (nBAF) Complex Aids Activity-induced Immediate Early Gene Transcription by Mediating RNA Polymerase II Elongation

Date: July 28, 2022

Time: 12:00 p.m. – 1:30 p.m. (PT) / 3:00 p.m. – 4:30 p.m. (ET)

Invited Speakers:

• Surag Nair - Kundaje Lab, Stanford University
  Decoding Fibroblast Reprogramming Through the Lens of Transcription Factor Stoichiometry and Motif Syntax at Single Cell Resolution
• Eric Martin - Forsberg Lab, UC Santa Cruz
  ATAC-ing the Epigenetic Roots of Lineage Fate Choice in Hematopoiesis
• Coral Zhou - Heald Lab, UC Berkeley
  Mechanisms of Mitotic Chromosome Scaling in Xenopus

Date: June 23, 2022

Time: 12:00 p.m. – 1:30 p.m. (PT) / 3:00 p.m. – 4:30 p.m. (ET)

Invited Speakers:

• Gerrald Lodewijk - Shariati Lab, UC Santa Cruz
  Dynamics of Gene Regulatory Network During Cell Cycle Re-entry From Quiescence
• Muryam Gourdet - Narlikar Lab, UC San Francisco
  A Hexasome is the Preferred Substrate for the INO80 Chromatin Remodeling Complex, Allowing Versatility of Function
• Conor Horton - Fordyce Lab, UC Berkeley and Stanford University
  Short Tandem Repeats Bind Transcription Factors to Tune Eukaryotic Gene Expression

Date: May 26, 2022

Time: 12:00 p.m. – 1:30 p.m. (PT) / 3:00 p.m. – 4:30 p.m. (ET)

Invited Speakers:

• Livia Ulicna - Van Rechem lab, Stanford University
  Chromatin remodelers lost in translation
• Antonio Gomez - LaSalle lab, UC Davis
  Placental methylome reveals a lncRNA-derived micropeptide associated with autism and chromatin
• Ali Palla - Fujimori lab, UC San Francisco
  Understanding Histone Demethylase KDM5A Beyond the Histone H3 Tail

Date: April 28, 2022

Time: 12:00 a.m. (PT) / 3:00 p.m. (ET)

Invited Speakers:

• Djem Kissiov, Ph.D. - Raulet lab, UC Berkeley
  Binary Outcomes of Enhancer Action Underlie Mitotically Stable Random Monoallelic Expression
• Sujin Lee, Ph.D. - Madhani lab, UC San Francisco
  Intrinsic Mesoscale Properties of a Polycomb Protein Underpin Heterochromatin Fidelity
• Amit Behera - Brooks lab, UC Santa Cruz
  Splicing Factor Mutation U2AF1 S34F Alters Chromatin State

Date: March 17^th, 2022

Time: 12:00 p.m. (PT) – 3:00 p.m. (ET)

Keynote Speaker: Alistair Boettiger, Ph.D. - Assistant Professor, Dept. of Developmental Biology, Stanford University
Rethinking Polycomb Repression

Additional Speakers:

• Nicholas Altemose, D.Phil, Ph.D. - Postdoctoral Researcher, Karpen lab, UC Berkeley
  Mapping Protein-DNA Interactions on Long, Single Chromatin Fibers
• Ryan Boileau, Graduate Researcher, Blelloch lab, UC San Francisco
  Decoupling of Transcriptional Activation from Enhancer Chromatin Dynamics During the Naïve to Formative Pluripotent Transition