Computational Neural
Data and Dynamics Lab

UCSD Cognitive Science

Eran A. Mukamel, PI

Eran Mukamel, PI

Ethan Armand

Wayne Doyle

Postdoctoral Fellow
University of California, San Diego
contact: widoyle [at] ucsd [dot] edu

Sensory system neurons have unique cellular identities, which reflect their important functional role in the detection and processing of information crucial for survival. Wayne is interested in how the identities of cells in sensory systems are established and maintained through changes in their epigenome and transcriptome. He is approaching these problems by investigating multi-modal epigenomic and transcriptomic datasets

Junhao Li

Junhao is interested in finding non-coding RNAs related to neuroepigenetics from large-scale next-generation sequencing data, and investigating their implications for neurodevelopment and neurological disorders.

Krystyna Kolodziej

Krystyna is interested in the unique epigenetic patterns of various cell types in the brain and how they relate to cortical function; she plans to apply these characterizations to further our understanding of normal and pathogenic neural development and cognition.

Han Li

Han is working to use traditional machine learning and deep learning models to interpret correlations between DNA Methylation Levels and DNA sequences.

Fangming Xie

Fangming is interested in differentiating DNAs from their mixture of different tissue origins, with applications to detection of neurodegenerative disease.

Alumni

Christopher Keown

Ph.D. Candidate in Cognitive Science
University of California, San Diego
website: http://www.chriskeown.com
contact: christopher.keown [at] gmail [dot] com

Chris is interested in examining genome-wide DNA methylation patterns in the brain to understand how methylation markers differ across cell types and the functional implications of this; how changes in methylation may support cognition; and whether methylation differences may be implicated in disorders such as schizophrenia and autism.

Shweta Patkar

Research Associate, Summer 2017
B.A. candidate, Cognitive Science
University of California, Berkeley
contact: shwetapatkar96 [at] gmail [dot] com

Tianhao Xiao

Research Associate, Summer 2017

Diego Zamora Rodriguez

Research Associate, Summer 2017
B.A. candidate, Computer Science
Tecnologico de Monterrey, Campus Guadalajara (ITESM), Mexico

Michael Hatch

B.S. candidate in Cognitive Science
University of California, San Diego
contact: mjhatch [at] ucsd [dot] edu

Roles for non-coding RNA in brain development; machine learning methods.

Alex Jorjorian

B.S. candidate in Bioengineering Biotechnology
University of California, San Diego
contact: ajorjori [at] ucsd [dot] edu

Roles for non-coding RNA in brain development; machine learning methods.

We are recruiting students and postdocs interested in getting involved with our work on computational analysis and modeling of neural dynamics and epigenomics data sets. If you are interested, email us at lab [at] brainome [dot] ucsd [dot] edu.

Postdoctoral position in Computational Neuro-Epigenomics

The UCSD Computational Neural Data and Dynamics Lab, led by Prof. Eran Mukamel, is seeking applications for a funded postdoctoral research position as part of our group�s studies of epigenomic regulation in brain cells. Our lab in the University of California, San Diego (UCSD) Cognitive Science department uses tools from bioinformatics and machine learning to analyze a variety of neural epigenetic processes. We have identified unique forms of DNA methylation in neurons and glial cells, and we are working to understand the distribution, development and potential function of these epigenomic marks. Our theoretical and computational research group has close ties with experimental neurobiology and genomics labs in San Diego. More information about the lab is at http://brainome.ucsd.edu.

Applicants should hold a Ph.D. (or expect to receive one shortly) and have a strong background in computational biology (e.g. computational neuroscience, bioinformatics), or physical science or engineering (e.g. math, physics, computer science, bioengineering) as well as a strong interest in fundamental genomic processes underlying neural development and cognition. Previous experience with genomic or epigenomic data analysis is an advantage, but not necessary.

To apply, please send the following to Prof. Mukamel (emukamel@ucsd.edu):

• A cover letter describing your background, research interests and how they fit with our lab
• Curriculum vitae
• Contact information for 2-3 references
• If available, a sample of the applicant�s work, e.g. a manuscript, thesis, or other work product
Salary will be commensurate with NIH rates. For inquiries or more information, please contact Eran Mukamel at the address above.

Contact