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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Transcription Factor Network Biology

Bing Ren and Chris Glass and colleagues have characterized a large panel of epigenetic features, transcription factor binding patterns and mRNA expression levels among others in macrophages from five strains of mice. By studying the effects of genetic variations, the authors identified a complex network of transcription factors driving differentiation and environmental responses.

Read in Cell
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 Tutorial for Beginners

May 1, 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 

 

Register Here 

 

Cytoscape is the most popular software for analyzing and visualizing molecular networks ...

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

Cytoscape Tutorial for Beginners 2018
Tuesday, June 5, 2018
9:30 am – 12:30 pm
UC San Diego, BRF2 Room 3A04
Register Here

qBIO Seminar Series
Mondays, April 2 – June 4
3:00 pm – 4:00 pm
UC San Diego, NSB 1205
Complete schedule here

Career Development Seminar Series
Tuesdays, April 3 – June 5
4:00 pm – 5:00 pm
UC San Diego, BRF2 Rm 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