Jim Kent

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

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.

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).

Beautiful Code

Jim is one of programmers featured in Beautiful Code, 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. Before bioinformatics, he wrote computer art and animation programs. He enjoys Spanish language, guitar, and reading just about everything.

UCSC Genome Browser Staff
UCSC Genome Browser staff


  Center for Biomolecular Science & Engineering
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University of California, Santa Cruz, CA 95064
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For questions about the UCSC Genome Browser: genome@soe.ucsc.edu

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Jim Kent

Jim Kent

Director, UCSC Genome Browser Project

Research Scientist, Department of Biomolecular Engineering, UC Santa Cruz

PubMed index for WJ Kent

Slides from presentations

News stories

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

Bioinformatics & computational biology at UCSC


(831) 459-1401
fax (831) 459-1809

Center for Biomolecular Science & Engineering
University of California
1156 High Street
Santa Cruz, CA 95064