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header: Jim Kent

Photo: Jim Kent

Associate Research Scientist, Department of Biomolecular Engineering, UC Santa Cruz
subhead: information

PubMed index for WJ Kent

Slides from presentations

News stories

Article in Dr. Dobbs: XML, SQL, and C

Bioinformatics & computational biology at UCSC

subhead: contact
kent@soe.ucsc.edu
(831) 459-1401
fax (831) 459-1809

521 Engineering 2
MS: CBSE/ITI
University of California
1156 High Street
Santa Cruz, CA 95064

 
header: research projects
 

Jim Kent directs the genome browser development and quality assurance staff of the UCSC Genome Bioinformatics Group. He created the computer program that assembled the first working draft of the human genome sequence from information produced by sequencing centers worldwide and and participated in the informatics associated with the finishing effort. The UCSC Genome Bioinformatics Group participates in the public consortium efforts to produce, assemble, and annotate genomes.

Photo:
Photo: wet lab group
Click photos to enlarge

UCSC Genome Browser
The UCSC Genome Browser provides interactive exploration of metazoan genome sequences. It fuses multiple kinds of genome-wide annotation in a web-based "genome microscope." The genomes are annotated based on high-throughput experimental projects, bioinformatics, and large human-curated data sets. The UCSC Genome Browser allows cross-species comparisons and now features a growing set of images showing expression patterns at both the tissue and cellular levels. These projects receive funding from the Howard Hughes Medical Institute (HHMI), the National Human Genome Research Institute (NHGRI), the National Cancer Institute (NCI), and the California Institute for Quantitative Biosciences (QB3).

New book: Beautiful Code
Jim is one of programmers featured in Beautiful Code, expected out in June 2007. Leading computer scientists offer case studies that reveal how they found unusual, carefully designed solutions to high-profile projects. All author royalties will be donated to Amnesty International.

In real life
Jim lives in Santa Cruz, CA with his wife Heidi and children Mira and Tisa. Before bioinformatics, Jim used to write computer art and animation programs. He enjoys Spanish language, guitar, and reading just about everything.

 
   
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© January 2005,
CBSE

Updated 5/2008

  Center for Biomolecular Science & Engineering
Engineering 2, Suite 501, Mail Stop CBSE/ITI
UC Santa Cruz, Santa Cruz, CA 95064
phone (831) 459-1544  • fax (831) 459-1809
cbseweb@soe.ucsc.edu

Questions about the UCSC Genome Browser? Email genome@soe.ucsc.edu
header: Jim's Links
 

The UCSC Genome Browser also known as "the golden path"

Parasol, a job control system for computer clusters that's fast and free

The Intronerator, to look at C. elegans genes and splicing patterns

cis-Site Seeker, to look for regulatory regions in RNA or DNA sequences with the Improbizer

Cross-species alignments, a program and some samples using the not yet famous WABA algorithm

The latest experiment, hot link to something, who knows what

Web tutorial, how to put a page up at UCSC

Commands, a catalog of command- line-driven programs

Source code, free for academic, non-profit, or personal use

Executables, commonly requested compiled versions; free for academic, non-profit, or personal use

OTHER USEFUL LINKS:

Blast, homology searching

Google Scholar, search scientific literature the Google way

UCSC schedule of classes, er, when was that final?

PubMed, to search the scientific literature