Dynamical Systems, Stochastic Processes, and Biological Circuits

Wendy Huang

Faculty Status
Active
Title
Assistant Professor
Email
wjh003@ucsd.edu
Phone
(858) 246-2258
Track(s)
Bioinformatics and Systems Biology
Brief Research Description
Non-coding RNA, RNA binding proteins, gene expression analysis, immune pathologies
Lab Description

We strive to better understand how diverse members of the non-coding RNA family and their RNA binding protein partners, through their ability to modulate gene expression in the nucleus, contribute to immune pathologies in mouse models of colitis, multiple sclerosis, and cancers. Deeper understanding of how immune gene expression programs are controlled will facilitate development of new intervention strategies against inflammatory diseases.

Benjamin Smarr

Faculty Status
Active
Title
Assistant Professor
Title 2
Assistant Professor
Email
bsmarr@ucsd.edu
Track(s)
Bioinformatics and Systems Biology
Department
Brief Research Description
What information do biological timeseries hold? What biodynamic interactions generate these signals?

Shamim Nemati

Faculty Status
Active
Title
Assistant Professor
Email
snemati@health.ucsd.edu
Phone
(405) 850-4751
Track(s)
Biomedical Informatics
Brief Research Description
Signal Processing, Dynamical Systems, Multivariate Time Series, Point Process, Deep Learning, Reinforcement Learning, Video Processing, and Natural Language Processing

Emma Farley

Faculty Status
Active
Title
Assistant Professor
Email
efarley@ucsd.edu
Phone
(858) 246-2559
Track(s)
Bioinformatics and Systems Biology
Department
Brief Research Description
High-throughput functional assays in developing embryos to decipher how genomes instruct development

Debashis Sahoo

Faculty Status
Active
Title
Assistant Professor
Phone
(858) 246-1803
Track(s)
Bioinformatics and Systems Biology
Department
Brief Research Description
Systems Biology of normal and cancer tissues, Boolean analysis of biological systems, Computational models of stem cell differentiation, Sequencing data analysis

Eran Mukamel

Faculty Status
Active
Title
Assistant Professor
Email
emukamel@ucsd.edu
Track(s)
Bioinformatics and Systems Biology
Department
Brief Research Description
Computational neuroscience, brain cell differentiation and development, computational analysis of brain-network dynamics

Anjana Rao

Faculty Status
Active
Title
Adjunct Professor
Email
anrao@ucsd.edu
Track(s)
Bioinformatics and Systems Biology
Department
Brief Research Description
Understanding how signalling pathways control gene expression, using T cells and other cells of the immune system as models
Lab Description

We are interested in all aspects of gene regulation, and have used model systems including cells of the immune system, embryonic stem cells, haematopoietic stem cells and cells of the mouse embryo.

Nathan E. Lewis

Faculty Status
Active
Title
Associate Professor
Email
n4lewis@ucsd.edu
Track(s)
Bioinformatics and Systems Biology
Department
Brief Research Description
Systems biology approaches for integration of disparate data types to study diseases involving metabolism, glycobiology, and to guide cell engineering for drug development.

Nan Hao

Faculty Status
Active
Title
Assistant Professor
Email
nhao@ucsd.edu
Phone
(858) 822-1766
Track(s)
Bioinformatics and Systems Biology
Department
Brief Research Description
Dynamic regulation of signaling and transcriptional networks in single cells
Lab Description

Our laboratory aims to obtain a quantitative and predictive understanding of how complex biological systems operate and function. We focus on the two complementary directions: systems biology analysis to deconstruct natural systems and synthetic biology to build artificial systems analogous to natural systems.

Yingxiao (Peter) Wang

Faculty Status
Active
Title
Professor
Email
yiw015@eng.ucsd.edu
Phone
(217) 898-2810
Track(s)
Bioinformatics and Systems Biology
Department
Brief Research Description
Live cell imaging, genetic and epigenetic regulations, immunoengineering, therapeutics
Lab Description

Our research focuses on molecular engineering for cellular imaging and reprogramming, and image-based bioinformatics, with applications in stem cell differentiation and cancer treatment.