SDCSB began in 2005 as the San Diego Consortium for Systems Biology to bring together scientists across disciplines and institutions, to promote collaborative research and training, and to support the exchange of ideas and resources.

NCSB LogoIn 2010, we became one of the National Centers for Systems Biology funded by the National Institute of General Medical Sciences (NIGMS) (P50 GM085764). Over the past five years our research has led to significant systems biology advances, including genome-wide studies of how stress remodels transcriptional and genetic networks, discovery of an independent metabolic clock coordinating cell growth through cycles of TOR1 activity, demonstration that much of the Gene Ontology can be inferred directly from ‘omics data, prediction of cancer survival time and drug response by an approach called Network Based Stratification and a series of major feats in engineering of synthetic coupled genetic circuits.

The theme of our Center – “From Maps to Models” – addresses an important challenge in systems biology: traversing between network maps and mathematical models, two very successful but so far mostly separate biological representations and modes of study. Network maps tend to be global, static, abstract and descriptive, whereas mathematical models tend to be local, dynamic, detailed and predictive. Guided by this overarching theme, four SDCSB research projects seek to develop a general library of maps and models relevant to fundamental cellular and super-cellular processes, including the spatiotemporal architecture of the genome, whole-cell proteome dynamics, cell-cell communication and heterogeneity and environment-genome interactions. These mapping and modeling activities are fueled by technologies advanced across three SDCSB core platforms.

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Transcriptional Landscape of Human Microglia

Microglia play a key role in memory and motor learning as well as neurodevelopmental and psychiatric disorders. Chris Glass and colleagues recently performed a systematic evaluation of gene expression and regulatory landscapes in human microglia ex vivo and in vitro. Many genes specifically expressed ex vivo are the same genes associated with increased risks of neurologic diseases. They also found that the transcriptional landscape changes dramatically upon in vitro culture suggesting that new culture conditions are needed to properly model in vivo behavior.

Read in Science
Biofilms Coordinate Competition vs Sharing

Bacterial biofilms grow in oscillations, with stopping and starting controlled by recently discovered electrical signals. The Suel lab has now found that pairs of bacterial biofilms coordinate their growth behavior depending on environmental conditions. When nutrients are limiting, biofilms oscillate out of phase so that only one is growing at a time. When nutrients though are plentiful, biofilms grow ‘n sync.

Read in Science
Mapping the Druggable Genome of Malaria

The malaria parasite Plasmodium falciparum can rapidly evolve drug resistance, rendering once life-saving drugs worthless. Elizabeth Winzeler and colleagues recently identified mutations in 83 genes associated with resistance to 37 diverse compounds. These findings suggest new drug targets and advance our understanding of resistance mechanisms.

Read in Science

Cytoscape Workshop 2018

April 5, 2018

Tuesday, June 5, 2018 9:30 am – 12:30 pm UC San Diego, Biomedical Research Facility II, Room 3A04 Organized by Barry Demchak, Cytoscape’s Chief Architect With additional financial support provided by Flu-OMICS 

 

Registration begins May 2018

Cytoscape is the most popular software for analyzing ...

4th Annual “Host-Pathogen Interactions: Circuits to Systems” Symposium

December 18, 2017

Tuesday, February 6, 2018 from 8:30 AM – 7:00 PM Roth Auditorium at the Sanford Consortium for Regenerative Medicine 2880 Torrey Pines Science Drive, La Jolla, CA

Participation is FREE, but registration is required for all attendees. For registration, including travel grant and poster ...

Applications Now Open For the Systems Biology Training Program

August 10, 2017

Sponsored by the San Diego Center for Systems Biology and UC San Diego Health Sciences

 

Overview

The San Diego Center for Systems Biology (SDCSB) is pleased to accept applications for our Systems Biology Training Program. Applications are solicited from graduate students and ...

Previous SDCSB News

Systems-to-Synthesis Meeting (Spring 2018)
Thursday, May 17, 2018
2:00 – 6:00 pm
UC San Diego, Medical Education Telemedicine Bldg, Room 141
Register Here

Cytoscape Workshop 2018
Tuesday, June 5, 2018
9:30 am – 12:30 pm
UC San Diego, BRF2 Room 3A04
Registration begins in May 2018
More details here

Career Development Seminar Series
Tuesdays, April 3 – May 29
4:00 pm – 5:00 pm
UC San Diego, BRF2 Room 1102
Complete schedule here

Genetics, Bioinformatics and Systems Biology Colloquium
Thursdays, April 5 – Jun 7
12:00 pm – 1:00 pm
UC San Diego, Powell-Focht Bioengineering Hall Auditorium
Complete schedule here