Computational Biology

University of California, Berkeley

Overview

Computational biology is an academic growth area that binds together multiple areas of biological research with the mathematical and computational sciences. It takes center stage in the new data-oriented biology by facilitating scientific discoveries based on high-throughput methods. The genomic revolution has fundamentally changed the biological sciences, and computational biology provides the means for translation of genomic discoveries into a new understanding of complex biological systems and eventually into improvements of the human condition through development of solutions to environmental problems, new drug discoveries, and personalized medicine.

The Center for Computational Biology is Berkeley’s hub for research and training in computational biology and bioinformatics. Through courses, seminars, scientific meetings, and innovative training programs for PhD students administered by the Graduate Group in Computational Biology, the center catalyzes biological discoveries at the interface of biology, computation, and mathematics/statistics. As a campus strategic initiative, the center fosters an interactive, innovative, and collegiate environment for faculty, students, and postdoctorates drawn from five colleges and over a dozen academic departments. Faculty research interests are likewise diverse, ranging from computational and statistical genomics to population, comparative, and functional genomics; from bioinformatics and proteomics to evolutionary biology, phylogenomics, and statistical and computational methods development for modeling biological systems.

Undergraduate Programs

There is no undergraduate program in Computational Biology.

Graduate Programs

Computational Biology: Designated Emphasis (DE), PhD

Visit Group Website

Courses

Computational Biology

CMPBIO 98BC Berkeley Connect in Computational Biology 1 Unit

Terms offered: Spring 2017, Fall 2016, Spring 2016
Berkeley Connect is a mentoring program, offered through various academic departments, that helps students build intellectual community. Over the course of a semester, enrolled students participate in regular small-group discussions facilitated by a graduate student mentor (following a faculty-directed curriculum), meet with their graduate student mentor for one-on-one academic advising, attend lectures and panel discussions featuring department
faculty and alumni, and go on field trips to campus resources. Students are not required to be declared majors in order to participate. Course may be repeated.

Berkeley Connect in Computational Biology: Read More [+]

CMPBIO 175 Introduction to Computational Biology and Precision Medicine 3 Units

Terms offered: Summer 2017 First 6 Week Session
Computational biology is an interdisciplinary field that develops and/or applies computational methods including bioinformatics to analyze large collections of biological data such as genomic data with a goal of making new predictions or discoveries. Precision medicine is an emerging approach for human disease treatment and prevention that takes into account individual variability in genes, environment, and lifestyle for each person. Computational
biology and bioinformatics tools are critical for advancing precision medicine. This survey course introduces computational tools for the analysis of genomic data and approaches to understanding and advancing precision medicine.
Introduction to Computational Biology and Precision Medicine: Read More [+]

CMPBIO 198BC Berkeley Connect in Computational Biology 1 Unit

Terms offered: Spring 2017, Fall 2016, Spring 2016
Berkeley Connect is a mentoring program, offered through various academic departments, that helps students build intellectual community. Over the course of a semester, enrolled students participate in regular small-group discussions facilitated by a graduate student mentor (following a faculty-directed curriculum), meet with their graduate student mentor for one-on-one academic advising, attend lectures and panel discussions featuring department
faculty and alumni, and go on field trips to campus resources. Students are not required to be declared majors in order to participate. Course may be repeated.

Berkeley Connect in Computational Biology: Read More [+]

CMPBIO 201 Classics in Computational Biology 3 Units

Terms offered: Fall 2016, Fall 2015, Fall 2014
Research project and approaches in computational biology. An introducton to the diverse ways biological problems are investigated computationally through critical evaluation of the classics and recent peer-reviewed literature. This is the core course required of all Computational Biology graduate students.

Classics in Computational Biology: Read More [+]

CMPBIO C256A Human Genome, Environment and Human Health 3 Units

Terms offered: Not yet offered
This introductory course will cover basic principles of human/population genetics and molecular biology
relevant to understanding how data from the human genome are being used to study disease and other
health outcomes. The latest designs and methods for genome-wide association studies and other
approaches to identify genetic variants, environmental risk factors and the combined effects of gene and
environment important to disease and health
will be presented. The application of biomarkers to define
exposures and outcomes will be explored. The course will cover recent developments in genomics,
epigenomics and other ‘omics’, including applications of the latest sequencing technology and
characterization of the human microbiome.,Terms offered: Spring 2017
This introductory course will cover basic principles of human/population genetics and molecular biology
relevant to understanding how data from the human genome are being used to study disease and other
health outcomes. The latest designs and methods for genome-wide association studies and other
approaches to identify genetic variants, environmental risk factors and the combined effects of gene and
environment important to disease and health will be presented. The application of biomarkers to define
exposures and outcomes will be explored. The course will cover recent developments in genomics,
epigenomics and other ‘omics’, including applications of the latest sequencing technology and
characterization of the human microbiome.

Human Genome, Environment and Human Health: Read More [+]

CMPBIO C256A Human Genome, Environment and Human Health 3 Units

Terms offered: Not yet offered
This introductory course will cover basic principles of human/population genetics and molecular biology
relevant to understanding how data from the human genome are being used to study disease and other
health outcomes. The latest designs and methods for genome-wide association studies and other
approaches to identify genetic variants, environmental risk factors and the combined effects of gene and
environment important to disease and health
will be presented. The application of biomarkers to define
exposures and outcomes will be explored. The course will cover recent developments in genomics,
epigenomics and other ‘omics’, including applications of the latest sequencing technology and
characterization of the human microbiome.,Terms offered: Spring 2017
This introductory course will cover basic principles of human/population genetics and molecular biology
relevant to understanding how data from the human genome are being used to study disease and other
health outcomes. The latest designs and methods for genome-wide association studies and other
approaches to identify genetic variants, environmental risk factors and the combined effects of gene and
environment important to disease and health will be presented. The application of biomarkers to define
exposures and outcomes will be explored. The course will cover recent developments in genomics,
epigenomics and other ‘omics’, including applications of the latest sequencing technology and
characterization of the human microbiome.

Human Genome, Environment and Human Health: Read More [+]

CMPBIO C256A Human Genome, Environment and Human Health 3 Units

Terms offered: Not yet offered
This introductory course will cover basic principles of human/population genetics and molecular biology
relevant to understanding how data from the human genome are being used to study disease and other
health outcomes. The latest designs and methods for genome-wide association studies and other
approaches to identify genetic variants, environmental risk factors and the combined effects of gene and
environment important to disease and health
will be presented. The application of biomarkers to define
exposures and outcomes will be explored. The course will cover recent developments in genomics,
epigenomics and other ‘omics’, including applications of the latest sequencing technology and
characterization of the human microbiome.,Terms offered: Spring 2017
This introductory course will cover basic principles of human/population genetics and molecular biology
relevant to understanding how data from the human genome are being used to study disease and other
health outcomes. The latest designs and methods for genome-wide association studies and other
approaches to identify genetic variants, environmental risk factors and the combined effects of gene and
environment important to disease and health will be presented. The application of biomarkers to define
exposures and outcomes will be explored. The course will cover recent developments in genomics,
epigenomics and other ‘omics’, including applications of the latest sequencing technology and
characterization of the human microbiome.

Human Genome, Environment and Human Health: Read More [+]

CMPBIO C256A Human Genome, Environment and Human Health 3 Units

Terms offered: Not yet offered
This introductory course will cover basic principles of human/population genetics and molecular biology
relevant to understanding how data from the human genome are being used to study disease and other
health outcomes. The latest designs and methods for genome-wide association studies and other
approaches to identify genetic variants, environmental risk factors and the combined effects of gene and
environment important to disease and health
will be presented. The application of biomarkers to define
exposures and outcomes will be explored. The course will cover recent developments in genomics,
epigenomics and other ‘omics’, including applications of the latest sequencing technology and
characterization of the human microbiome.,Terms offered: Spring 2017
This introductory course will cover basic principles of human/population genetics and molecular biology
relevant to understanding how data from the human genome are being used to study disease and other
health outcomes. The latest designs and methods for genome-wide association studies and other
approaches to identify genetic variants, environmental risk factors and the combined effects of gene and
environment important to disease and health will be presented. The application of biomarkers to define
exposures and outcomes will be explored. The course will cover recent developments in genomics,
epigenomics and other ‘omics’, including applications of the latest sequencing technology and
characterization of the human microbiome.

Human Genome, Environment and Human Health: Read More [+]

CMPBIO C256B Genetic Analysis Method 3 Units

Terms offered: Not yet offered
This introductory course will provide hands-on experience with modern wet laboratory techniques and computer analysis tools for studies in molecular and genetic epidemiology and other areas of genomics in human health. Students will also participate in critical review of journal articles. Students are expected to understand basic principles of human/population genetics and molecular biology, latest designs and methods for genome-wide association studies and other
approaches to identify genetic variants, environmental risk factors and the combined effects of gene and environment important to human health. Students will learn how to perform DNA extraction, polymerase chain reaction and methods for genotyping, sequencing, and cytogenetics.
Genetic Analysis Method: Read More [+]

CMPBIO 290 Special Topics - Computational Biology 1 - 4 Units

Terms offered: Spring 2017, Spring 2016, Spring 2015
A graduate seminar class in which students closely examine recent computational methods in molecular and systems biology, for example for modeling mechanisms related to the regulation of gene expression and/or high-throughput sequencing data. The course will focus on computational methodology but will also cover relevant and interesting biological applications.

Special Topics - Computational Biology: Read More [+]

CMPBIO 293 Doctoral Seminar in Computational Biology 2 Units

Terms offered: Spring 2017, Fall 2016
This one-year interactive seminar builds skills, knowledge and community in computational biology for first year PhD and second year Designated Emphasis students. Topics covered include concepts in human genetics/genomics, laboratory methodologies and data sources for computational biology, workshops/instruction on use of various bioinformatics tools, critical review of current research studies and computational methods, preparation for success in the PhD
program and career development. Faculty members of the graduate program in computational biology and scientists from other institutions will participate. Topics will vary each semester.
Doctoral Seminar in Computational Biology: Read More [+]

CMPBIO 294A Introduction to Research in Computational Biology 2 - 12 Units

Terms offered: Fall 2016, Fall 2015, Fall 2014
Closely supervised experimental or computational work under the direction of an individual faculty member; an introduction to methods and research approaches in particular areas of computational biology.

Introduction to Research in Computational Biology: Read More [+]

CMPBIO 294B Introduction to Research in Computational Biology 2 - 12 Units

Terms offered: Spring 2017, Spring 2016, Spring 2015
Closely supervised experimental or computational work under the direction of an individual faculty member; an introduction to methods and research approaches in particular areas of computational biology.

Introduction to Research in Computational Biology: Read More [+]

CMPBIO 295 Individual Research for Doctoral Students 1 - 12 Units

Terms offered: Summer 2017 10 Week Session, Spring 2017, Fall 2016
Laboratory research, conferences. Individual research under the supervision of a faculty member.

Individual Research for Doctoral Students: Read More [+]

CMPBIO 477 Introduction to Programming for Bioinformatics Bootcamp 1.5 Unit

Terms offered: Summer 2017, Summer 2015 3 Week Session
The goals of this course are to introduce students to Python, a simple and powerful programming language that is used for many applications, and to expose them to the practical bioinformatic utility of Python and programming in general. The course will allow students to apply programming to the problems that they face in the lab and to leave this course with a sufficiently generalized knowledge of programming (and the confidence to read
the manuals) that they will be able to apply their skills to whatever projects they happen to be working on.
Introduction to Programming for Bioinformatics Bootcamp: Read More [+]

Contact Information

Computational Biology Graduate Group

574 Stanley Hall

Phone: 510-642-0379

Fax: 510-666-3399

compbiograd@berkeley.edu

Visit Group Website

Program Chair

Lisa Barcellos, PhD (Public Health)

324 Stanley Hall

Phone: 510-642-7814

lbarcellos@genepi.berkeley.edu

Head Graduate Adviser

Haiyan Huang

Phone: 510-642-6433

http://www.stat.berkeley.edu/~hhuang/

hhuang@stat.berkeley.edu

Graduate Program Coordinator

Kate Chase

574 Stanley Hall, MC #3220

Phone: 510-642-0379

katechase@berkeley.edu

Adminstrative Director, CCB

Xuan Quach

174 Stanley Hall MC #3220

Phone: 510-666-3342

Fax: 510-666-3399

xuquach@berkeley.edu

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