SCSBC website 

 

 

 

Welcome !

Announcing the 3rd Annual Southern California Systems Biology Conference (SoCal SysBio). This conference brings together diverse researchers from leading Southern California academic campuses to showcase current research activities and promote collaborative opportunities in all areas of Systems Biology.
 

When 

Where 

 Saturday, January 26th, 2013

 UC Irvine Student Center, (Pacific ballroom C & D), Irvine, CA 92697

SCSBC website 

 

 

 

Welcome !

Announcing the 4th Annual Southern California Systems Biology Conference (SoCal SysBio). The conference brings together diverse researchers from leading Southern California academic campuses to showcase current research activities and promote collaborative opportunities in all areas of Systems Biology.
 

When 

Where 

 Saturday, January 25th, 2014

 Physical Sciences Lecture Hall (PSLH100) & University Club, Irvine, CA 92697

 

Special Note: Teaching Systems Biology workshop

We also welcome your participation in the 2nd Howard Hughes Medical Institute sponsored workshop on "Teaching Systems Biology" scheduled for Sunday, January 26th, 2014 at the Arnold & Mabel Beckman Center, 100 Academy Way, Irvine, CA 92617. Registration is FREE. Program information is available here.

Schedule of Events

2013 SoCal SysBio Conference: Schedule of Events

Time

Name

Institution

Title

8:00-8:30 am Breakfast Buffet
8:30-8:35 Welcome ! CCBS Opening remarks - Arthur D. Lander
8:35-9:00 Tom Graeber UCLA  Feedback loops in cancer signaling and metabolism
9:00-9:25 Eliot Bush Harvey Mudd  Modeling the Role of Negative Cooperativity in Metabolic Regulation and Homeostasis 
9:25-9:50 Ian Ehrenreich USC  A 'simple' model system sheds light on the genetic basis of complex traits 
9:50-10:15 Animesh Ray KGI  Genetic Robustness: Promiscuity, plasticity and modular rewiring of interaction networks 
10:15-10:30 Coffee Break
10:30-10:55 Stefano Lonardi UCR  Nucleosome positioning in the human malaria parasite 
10:55-11:20 Rob Edwards SDSU Viruses, Microbes, and Metagenomes: Shedding light on viral dark matter 
11:20-11:45 Maksim Bazhenov UCR Role of neuronal oscillations and synchrony in olfactory coding 
11:45-12:10 Omar Saleh UCSB Motor driven DNA gels 
12:15-2:00 Lunch & Posters  Graduate/Postdoc Poster Session
2:00-2:25 Alan Garfinkel UCLA  Nonlinear Dynamics: the Real Systems Biology 
2:25-2:50 Joe DiSefano UCLA  Web Apps for Theoretical and Translational Dynamic Systems Biology Research and Teaching 
2:50-3:15 Liming Wang CSULA  A critical quantity for noise attenuation in feedback systems 
3:15-3:40 Paul Marjoram USC  Analysis of Genetic Networks using Approximate Bayesian Computation 
3:40-4:00 Coffee Break
4:00-4:25 Roy Wollman  UCSD  Dual receptor - single ligand signaling systems: a design principle perspective 
4:25-4:50 Susanne Rafelski UCI  Quantitative Analysis of Mitochondrial Networks in Budding Yeast 
4:50-5:15 Ellen Rothenberg Caltech  Complex multistep dynamics of gene regulatory change in T-cell lineage commitment
5:15-5:40 Maxim Plikus UCI  Local circadian clock gates cell cycle progression of transient amplifying cells during regenerative hair cycling 
5:40-6:05 Terry Hwa UCSD  Pattern formation from motility control 
6:05-6:15 Closing Remarks SDCSB Closing remarks and discussion - Alex Hoffman
6:15-8:00 Reception & Posters Graduate/Postdoc Poster Session

Schedule of Events

2014 SoCal SysBio Conference: Schedule of Events

Program details will be updated shortly.

Time

Name

Institution

Title

8:00-8:30 am Breakfast Buffet    
8:30-8:35 Welcome ! CCBS Opening remarks - Arthur D. Lander
8:35-9:00 Jun Allard UCI Mechanical Modulation of Receptor-Ligand Bonds at Cell-Cell Interfaces
9:00-9:25 Tetsuya Iwasaki UCLA The Biological Clockwork Underlying Adaptive Rhythmic Movements
9:25-9:50 Elizabeth Read UCI  Stochastic Bistability and Switching in Virus/Immune Cell Networks
9:50-10:15 Anca Segall SDSU  Artificial Neural Networks for Detecting Viral and Phage Structural Proteins
10:15-10:30 Coffee Break    
10:30-10:55 H. Howard Xu CSULA Modulating Expression of Bacterial Essential Genes and Operons for Discovery of Novel Antibacterial Inhibitors
10:55-11:20 Michelle O'Malley UCSB  Fueling Sustainability: Engineering Anaerobic Gut Fungi for Biomass Breakdown
11:20-11:45 Chang C. Liu UCI  A New Genetic System for Rapid Evolution
11:45-12:10 Karine Le Roch UCR  Three-dimensional modeling of the P. falciparum genome during the erythrocytic cycle: connections

between genome architecture and gene expression

12:15-2:00 Lunch & Posters    Graduate/Postdoc Poster Session, University Club
2:00-2:25 Sheng Zhong UCSD Comparative Epigenomics: Exploring Evolutionary and Temporal Variations of the Epigenomes
2:25-2:50 Nick Wisniewski UCLA  Maximal Information Component Analysis of Non-linear Interaction Networks 
2:50-3:15 Peter Yingxiao Wang  UCSD  Live Cell Imaging of Molecular Actions
3:15-3:40 Long Cai CalTech  Single Cell Systems Biology by Super-Resolution Barcoding
3:40-4:00 Coffee Break    

 

4:00-4:30

New Methodologies

(short talks)

 

various

StochSS: an Integrated Development Environment for Modeling and Simulation of Stochastic Biochemical Systems. Brian Drawert (UCSB, Petzold lab, postdoc)

A Microfluidics Platform for the Real-Time Analysis of Epithelial Wound Response Signaling, Naomi Martineau (UCSD, Wollman lab, graduate student)

Global-scale Meta-analysis Based Gene Expression Profiling Platform: Gene Expression Commons. Jun Seita (Stanford University, Weissman lab, postdoc)

4:30-4:55  Irene Chen UCSB Emergence and Evolution of Functional RNA
4:55-5:20  Josh Millstein  USC  A Dense Molecular Regulatory Network Underlies Biochronicity
5:20-5:45 Ted Karginov  UCR Argonaute and microRNAs in Post-Transcriptional Regulation
5:45-6:10 Weifeng Gu  UCR  Systematic Study of Pol II Trranscription Start Sites by Deep-Sequencing --- Identification of pri-piRNAs.
6:10-6:20 Closing Remarks SDCSB Closing remarks and discussion
6:25-8:00 Reception & Posters   Graduate/Postdoc Poster Session, University Club
       

Schedule of Events

2015 SoCal SysBio Conference: Schedule of Events

Time

Name

Campus

Title

8:00-8:30 Breakfast Buffet   Main Auditorium: Crystal Cove Auditorium; Refreshments: Emerald Bay
8:30-8:35 Welcome ! CCBS Opening remarks
8:35-9:00 Michelle Digman UCI  Mapping Spatio-temporal dynamics and Metabolic Alterations of P53 Upon DNA Damage
9:00-9:25 Matt Dean USC  The Evolutionary Genetics of Penis Bone Size and Shape 
9:25-9:50 Katrine Whiteson UCI  Metabolites, Germs and People: Eavesdropping on Human-associated Microbial Communities
9:50-10:15 Hilary Coller UCLA Quiet Time: The Secret Life of Quiescent Fibroblasts 
10:15-10:30 Coffee Break    
10:30-10:55 Terry Hwa UCSD  The (Bacterial) Warburg Effect Results from Optimal Resource Allocation 
10:55-11:20 Yi Xing UCLA Big Data and Systems Biology Approaches to Elucidating RNA Regulatory Networks 
11:20-11:45  Tao Jiang UCR  Differential Gene Expression Analysis Using Coexpression and RNA-Seq Data
11:45-12:10 Antoni Luque  SDSU  Role of Linker Histones in the Structure and Dynamics of Chromatin Fibers 
12:15-2:00 Lunch & Posters   Graduate/Postdoc Poster Session, Emerald Bay
2:00-2:35 Poster short talks    3 presentations chosen from submitted poster abstracts
2:35-3:00 Alex Zambon  KGI  New Systems Biology Approaches to Understand and Control Cardiomyocyte Proliferation 
3:00-3:25 Otger Campas  UCSB  Measuring Cellular Forces within Living Embryonic Tissues 
3:25-3:50 Viviana Gradinaru  CalTech  Visualizing the Activity and Anatomy of Brain Circuits: Optogenetic Sensors and Tissue Clearing  Approaches 
3:50-4:10 Coffee Break    

4:10-4:35

Fabian Filipp 

UCM

Cancer Systems Biology of Metastatic Melanoma 

4:35-5:00 Clodagh O'Shea 
Salk  Exploiting Viruses as a System to Understand and Treat Cancer 
5:00-5:25 Joel Rothman 
UCSB  Plasticity and Fidelity in Developmental Gene Regulatory networks 
5:25-5:50 Elisa Franco  UCR 
Structural Analysis and Design of Biochemical Dynamic Circuits
5:50-6:15 Lea Goentoro CalTech 
Self-repairing Symmetry in Jellyfish
6:15-6:20 Closing Remarks SDCSB Closing remarks and discussion
6:20-8:00 Reception & Posters   Graduate/Postdoc Poster Session, Emerald Bay
       

SCSBC 2013: Speakers

2013 SoCal SysBio Conference: Speakers

Name

Institution

Presentation Title

Ellen Rothenberg Caltech Complex multistep dynamics of gene regulatory change in
Complex multistep dynamics of gene regulatory change in T-cell lineage commitment.
Paul Marjoram USC Analysis of Genetic Networks using Approximate Bayesian Computation
Tom Graeber UCLA Feedback loops in cancer signaling and metabolism.
Alan Garfinkel UCLA Nonlinear Dynamics: the Real Systems Biology
Terry Hwa UCSD Pattern formation from motility control
Roy Wollman UCSD Dual receptor - single ligand signaling systems: a design principle perspective
Eliot Bush Harvey Mudd Modeling the Role of Negative Cooperativity in Metabolic Regulation and Homeostasis
Stefano Lonardi UCR Nucleosome positioning in the human malaria parasite
Maksim Bazhenov UCR Role of neuronal oscillations and synchrony in olfactory coding
Liming Wang CSU LA A critical quantity for noise attenuation in feedback systems
Suanne Rafelski UCI Quantitative Analysis of Mitochondrial Network Size,Topology, and Function in Budding Yeast 
Rob Edwards SDSU Viruses, Microbes, and Metagenomes: Shedding light on viral dark matter 
Ian Ehrenreich USC A 'simple' model system sheds light on the genetic basis of complex traits
Omar Saleh UCSB Motor driven DNA gels 
Animesh Ray KGI Genetic Robustness: Promiscuity, plasticity and modular rewiring of interaction networks
Joe DiStefano UCLA Web Apps for Theoretical and Translational Dynamic Systems Biology Research and Teaching 
Maksim Plikus UCI Understanding the complexity of hair stem cell signaling network with the aid of mathematical modelling

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