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UC Davis Genome Center Faculty Search
The UC Davis Genome Center integrates experimental and computational
approaches to address key problems at the forefront of genomics. The
Center is housed in a new research building with state-of-the-art
computational and laboratory facilities and currently comprises 15
experimental and computational faculty. These faculty are part of an
internationally recognized program in genomics and computational biology
at Davis, building on and enhancing the unique strengths and unmatched
breadth of the life sciences on the UC Davis campus.
The Genome Center and the School of Medicine invites applications for a
tenure-track faculty position in the area of human genetics and
genomics. Applicants interested in genomic approaches to human diseases
and investigators employing large-scale, technology-driven approaches
that complement existing strengths at UC Davis are particularly
encouraged to apply. Candidates should be strongly motivated by the
biological and medical importance of their research and should value
the opportunity to work in close collaboration with other groups and
disciplines.
Candidates may be at any academic level. At the senior level, we
invite applications from prominent scientists with distinguished records
of research, teaching, and leadership in genomics. At the junior level,
we invite applications from candidates whose accomplishments in
innovative research and commitments to teaching demonstrate their
potential to develop into the future leaders in human genetics and
genomics.
This position requires a Ph.D. or equivalent. The appointment will be
at the Assistant, Associate or Full Professor level in an appropriate
academic department in the School of Medicine. The position will remain
open until filled. For fullest consideration, applicants should submit
a letter of application, a curriculum vitae, statements of research and
teaching interests, and the names of at least five references to the
Genome Center Web Employment Application Site November 1, 2010.
The University of California is an affirmative action/equal opportunity
employer
DNA Technologies and Expression Analysis Cores Project Scientist
The UC Davis Genome Center integrates experimental and computational
approaches to address key biological problems in genomics. The DNA
Technologies and Expression Analysis Cores provide a broad range of
services with particular emphasis on genotyping, high-throughput DNA
sequencing, and expression analysis. These service cores operate on a
recharge basis to enable diverse research groups across campus with
access to stateżof-the-art technologies for analyzing nuclei acids.
The Genome Center invites applications for a project scientist who will
be involved in the development and implementation of new technologies as
well as the introduction of protocols and instrumentation that augment
existing core capabilities. These new technologies will include but are
not limited to instruments for chromatin immunoprecipitation and
construction of libraries for sequencing as well as high-throughput
sequencing platforms. This will involve planning and executing
experiments, generation of libraries and other materials, and subsequent
quality control and data analysis. The individual is expected to
collaborate actively in research projects of campus faculty while
working closely with the core manager.
This position requires a Ph.D. in Chemistry, Biochemistry, Molecular
Biology, Genetics or related field with at least two years of
postdoctoral experience. The individual should have demonstrated
knowledge and experience in molecular biology as reflected in his/her
publication record. The incumbent should possess broad chemical,
biochemical, computational, and technical knowledge sufficient to work
independently, supervise technical staff, troubleshoot problems, refine
technologies, and advise faculty and their research groups. The
position will be open until filled. To ensure full consideration,
applications should be completed by September 27, 2010. Applicants
should apply on-line with names for at least three letters of
recommendation at the genome center Employment Application Site.
The University of California is an affirmative action/equal opportunity employer
MARC FACCIOTTI RECOGNIZED AS UC DAVIS DISTINGUISHED ALUMNI
The Cal Aggie Alumni Association has recognized Assistant Professor Marc Facciotti, Department of Biomedical Engineering and the UC Davis Genome Center, as one of six UC Davis Distinguished Alumni for 2010. Awardees will be honored on Saturday, January 30 at the 2010 Alumni Awards Gala.
Facciotti, '97, is the recipient of the Young Alumnus Award, which honors a recent graduate who has made outstanding professional contributions to the community or to UC Davis. Facciotti discovered his love for scientific research while working toward a bachelor of science in biochemistry at UC Davis. While completing his doctorate at UC Berkeley, Facciotti honed his talent for teaching and began mentoring other students. He joined the UC Davis faculty in 2008. In addition to teaching classes, he mentors local high school students as well as undergraduate and graduate students at UC Davis. His first course, Protein Engineering, for which he developed all the materials from scratch, received rave reviews from students. Facciotti also acts as an adviser for a student design team.
Dr. PEGGY FARNHAM ELECTED AAAS FELLOW
Peggy Farnham, professor of pharmacology and associate director of the UC Davis Genome Center, is one of eight UC Davis faculty members elected as AAAS Fellows. Farnham was recognized for her "distinguished contributions to the field of biology, particularly for genome-wide characterization of transcription factor binding sites and chromatin modifications." Professor Farnham's laboratory searches for control points in the genome -- short DNA sequences that are responsible for activating or repressing genes. Professor Farnham is taking part in a large collaboration funded by the National Human Genome Research Institute to map all such functional sites in the human genome. This collaboration is known as the Encyclopedia of DNA Elements, or ENCODE, project.
A total of 531 new fellows were elected to the American Association for the Advancement of Science this year for their efforts to advance science or its applications. The new fellows will be presented with a certificate and rosette pin on Saturday, February 20, during the society's annual meeting in San Diego. UC Davis faculty members joining Professor Farnham as AAAS Fellows are David Amaral, Psychiatry and Behavioral Sciences; Katherine Ferrara, Biomedical Engineering; Richard Karban, Entomology and Center for Population Biology; Susan Kauzlarich, Chemistry; Jay Rosenheim, Entomology and Center for Population Biology; John Roth, Microbiology; and Valerie Williamson, Nematology.
Genome Center Seminars: 2009/2010 Schedule
| Jan. 14, 2010 |
Sanwen Huang (host: Richard Michelmore)
Beijing Genome Institute, Agriculture & Bioenergy Division Chinese Academy of Agricultural Sciences, Shenzen, China Location: 4202 GBSF Time: 4:00 pm | |
| Jan 15, 2010 | Steve Jacobsen (host Luca Comai)
Howard Hughes Medical Institute Department of MCD Biology University of California, Los Angeles Location: 1005 GBSF Time: 10:00 am | |
| Mar 19, 2010 | Graham Coop (host David Segal)
Evolution and Ecology UC Davis Location: 1005 GBSF Time: 10:00 am | |
| May 21, 2010 | The David L. Weaver Endowed Lecture in Biophysics and Computational Biology
Dr. Susan Lindquist Whitehead Institute for Biomedical Research Howard Hughes Medical Institute Broad Institute of MIT and Harvard Department of Biology, MIT Location: 1005 GBSF Time: 3:00 pm | |
| May 26 2010 CANCELLED | Mark Gerstein (host: Patrice Koehl)
Biomedical Informatics, Mol Biophys & Biochem, and Computer Science Yale University Location: 1005 GBSF Time: 4:00 pm | |
Upcoming Seminars
Bi-weekly Bioinformatics Tech Forums - Tuesdays 11:00am-12:00pm, Room 4202
The purpose of the Tuesday Bioinformatics Technology Forum (BTF) meeting series at the Genome Center is to provide a campus-wide venue to show and tell how bioinformatics tools or related information technology actually work. To present your practical problems and ask bioinformatics help is also an appropriate thing to do. In the meeting, people are encouraged to do live demonstrations as well as brief introductions of their work or problems. All talks are informal (although introduction slides are often helpful) and active interactions are expected. BTF is operating by a committee, which consists of Kyoungmi Kim and Dawei Lin. If you want to talk at BTF, please send an email to lhslin@ucdavis.edu to schedule your talk. BTF meetings are usually held at 11:00am-12:00pm every other Tuesday in room 4202, GBSF.
ENCYCLOPEDIA OF DNA PUBLISHED
A consortium of U.S. and international researchers, including a team led by Peggy Farnham, Professor of Pharmacology and Associate Director at the Genome Center, has completed a detailed study of a piece of the human genome. The study, which was carried out by 35 groups from 80 organizations around the world, was published in the June 14 issue of Nature and in 28 companion papers published in the June issue of Genome Research.
Recent Publications from the Genome Center
Bind-n-Seq: high-throughput analysis of in vitro protein-DNA interactions
using massively parallel sequencing. A, Korf I, Segal DJ.
Nucleic Acids Res. 2009 Oct 20.This study represents collaborative work by the Korf and Segal labs and
their shared student, Artem Zykovich. It describes a significant advance in
the methodology for finding the binding site of DNA-binding proteins in
vitro. read more...
CEGMA: a pipeline to accurately annotate core genes in eukaryotic
genomes, 2007, Bioinformatics, 23, 9, Genis Parra, Keith Bradnam,
and Ian Korf The numbers of finished and ongoing genome projects are
increasing at a rapid rate, and providing the catalog of genes for these
new genomes is a key challenge.. read more
...
Structure- based redesign of the dimerization interface reduces the toxicity of zinc-finger nucleases Nature Biotechnology, 25:786-793. Cover article
The Segal Lab, with collaborator Toni Cathomen at Charite´ Medical School in Berlin, Germany, describe an important advance in methods for editing the genomes of living cells. read more...
Genome-Wide Analysis of KAP1 Binding Suggests Autoregulation of KRAB-ZNFs
We performed a genome-scale chromatin immunoprecipitation (ChIP)-chip comparison of two modifications (trimethylation of lysine 9 [H3me3K9] and trimethylation of lysine 27 [H3me3K27]) of histone H3 in Ntera2 testicular carcinoma cells and in three different anatomical sources of primary human fibroblasts.read more...
Folding free-energy landscape of villin headpiece subdomain from molecular dynamics simulations. PNAS, in-press (published online)
Lei et al studied the folding process of a protein called villin headpiece (HP35) using molecular dynamics simulation and achieved high accuracy ab initio folding to as close as 0.46 Ċ. The achievement marks the first time that ab initio simulations can reach this level. The simulation demonstrated a comprehensive picture on the kinetics and thermodynamics of HP35 folding. read more ...
Forces Shaping the Fastest Evolving Regions in the Human Genome. PLoS Genetics, 2: e168.
Katherine Pollard and colleagues identified 202 genome sequences that are highly conserved between chimpanzee and other vertebrates, but changed significantly in the human lineage since divergence from the chimp-human ancestor. These Human Accelerated Regions (HARs) are mostly in non-coding DNA, often nearby proteins involved in transcription. There is some evidence of positive selection in the most accelerated HARs. In addition, the human-specific changes show a strong bias for AT to GC nucleotide changes, suggesting either biased gene conversion or isochore selection. read more ...
"Macronuclear Genome Sequence of the Ciliate Tetrahymena thermophila, a Model Eukaryote." PLoS Biol. 2006 Aug 29;4(9).
In the September issue of PLoS Biology, Jonathan Eisen and colleagues report on the sequencing and
analysis of the macronuclear genome of the ciliate Tetrahymena thermophila. read more ...
"An RNA gene expressed during cortical development evolved rapidly in humans." Nature. 2006 Aug 16.
Pollard and colleagues scanned the human genome for DNA sequences that have been nearly frozen throughout vertebrate evolution but changed rapidly in the human lineage since the chimp-human ancestor. read more ...
"Structure of Aart, a Designed Six-Finger Zinc Finger Peptide, bound to DNA" J. Mol. Biol. Aug 2006. doi:10.1016/j.jmb.2006.08.016
The Segal Lab, in collaboration with crystallographer Nancy Horton at U. Arizona, present the first crystal structure of an engineered, 6-zinc finger DNA-binding protein bound to DNA. read more ...
"Suz12 binds to silenced regions of the genome in a cell-type-specific manner." Genome Res. published online Jun 2, 2006.
In this manuscript, Squazzo and colleagues use the technique of genome-wide ChIP-chip to identify thousands of promoters that are silenced by Polycomb Group Repression Complexes (PRCs). read more ...
