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
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).
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