Department of Genome Sciences
Foege Building S-250, Box 355065
3720 15th Ave NE, Seattle WA 98195-5065
phone: (206) 221-7377 | fax: (206) 685-7301
non-academic questions:
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Primate evolution of the recombination regulator PRDM9
Jerrod Schwartz, David J. Roach, Jim Thomas and Jay Shendure are authors on paper in Nature Communications.

Emergent Biosynthetic Capacity in Simple Microbial Communities
Hsuan-Chao Chiu, Roie Levy, and Elhanan Borenstein are authors on paper in PLOS Computational Biology.

Metabolomics and proteomics reveal impacts of chemically mediated competition on marine plankton
MacCoss Lab member and GS Research Professor Brook Nunn is author on paper in PNAS. (cover design by MacCoss Lab intern Yuval Boss)

Computing exact p-values for a cross-correlation shotgun
proteomics score function

Jeff Howbert and Bill Noble are authors on paper in Molecular & Cellular Proteomics.

The Dynamics of Diverse Segmental Amplifications in Populations of Saccharomyces cerevisiae Adapting to Strong Selection
Dunham Lab member Celia Payen is lead author on paper in G3: Genes, Genomes, Genetics




Species-Level Deconvolution of Metagenome Assemblies with Hi-C-Based Contact Probability Maps
Josh Burton, Ivan Liachko, Maitreya Dunham, and Jay Shendure are authors on paper in G3: Genes, Genomes, Genetics

Three-dimensional modeling of the P. falciparum genome during the erythrocytic cycle reveals a strong connection between genome architecture and gene expression
Noble Lab member Ferhat Ay is lead author on paper modeling the dynamic genome architecture of a malarial parasite in Genome Research.

An autonomously replicating sequence for use in a wide range of budding yeasts
Dunham Lab members Ivan Liachko and Maitreya Dunham are authors on paper in FEMS Yeast Research.

GC-Rich DNA Elements Enable Replication Origin Activity in the Methylotrophic Yeast Pichia pastoris
Dunham Lab member Ivan Liachko is lead author on paper in PLOS Genetics, along with GS co-authors Kerry Bubb, Christine Queitsch, Bonny Brewer, M.K. Raghuraman, and Maitreya Dunham.

Rif1 controls DNA replication by directing Protein Phosphatase 1 to reverse Cdc7-mediated phosphorylation of the MCM complex
Brewer-Raghuraman Lab members Gina Alvino, Bonny Brewer, and M.K. Raghuraman are authors on paper in Genes and Development.

A Higher Mutational Burden in Females Supports a "Female Protective Model" in Neurodevelopmental Disorders
Eichler Lab members Sebastien Jacquemont (visiting scientist), Brad Coe (postdoc), Nik Krumm and Michael Duyzend (graduate students) are authors on paper in American Journal of Human Genetics
AJHG | The Economist | BBC

Grad Cecilia Noecker has been awarded an IGERT Big Data fellowship.

The UW SACNAS chapter has received the 2014 Graduate Chapter of the Year award.

Grad Joe Sanchez won first place for his poster "The human Meier-Gorlin Syndrome mutation in ORC4 reduces replication initiation and rDNA copy number in Saccharomyces cerevisiae", at the Yeast Genetics Meeting of the Genetics Society of America. Drs. Judit Villen, Lea Starita, and Celia Payen, along with grad Jenny Andrie, gave talks during the plenary session.

Dr. Jay Shendure has been awarded the 2014 HudsonAlpha Life Sciences Prize.

Andrew Adey has received the 2014 Distinguished Dissertation Award from the University of Washington.

GS grad Keolu Fox gave a talk, "Indigenomics: Next Generation Blood Typing", at the symposium: "A Spectrum of Perspectives: Native Peoples and Genetic Research", cosponsored by the Smithsonian Institute, NHGRI's Smithsonian exhibit "Genome: Unlocking life's code", and the National Congress of American Indians.

GS grad Michael Duyzend has been awarded an F30 predoctoral fellowship from NIMH.

Lessons From the Woman Who Discovered the BRCA Cancer Gene
Dr. Mary-Claire King's interview with Time magazine

Dr. Jay Shendure's interview with Cell magazine is available via their 40 under 40 list.

Dr. Mary-Claire King will be the commencement speaker at, and receive an honorary degree from, the Medical College of Wisconsin.

Dr. Benjamin Hall has been elected to the National Academy of Sciences.

The Department of Genome Sciences is excited to welcome Dr. Cole Trapnell as its newest Assistant Professor Faculty member, beginning July 1, 2014. Dr. Trapnell studies stem cells and differentiation, primarily using high throughput transcriptome sequencing.  He comes to UW from a postdoc at John Rinn’s lab at Harvard and before that, earning his Ph.D. in Computer Science from the University of Maryland, College Park working with both Steven Salzberg and Lior Pachter.

Introducing the incoming graduate class of 2014:

Clara Amorosi, Harvey Mudd College
Max Dougherty, UW Medical Scientist Training Program
Claudia Espinoza, University of New Mexico
Greg Findlay, UW Medical Scientist Training Program
Molly Gasperini, University of Washington
Andrew Hill, University of Washington
Emily Killingbeck, University of California, Berkeley
Jason Klein, UW Medical Scientist Training Program
John Lazar, UW Medical Scientist Training Program
Serena Liu, Dartmouth College
Heather Machkovech, UW Medical Scientist Training Program
Damon May, Yale University, University of Washington
Lindsay Pino, Penn State University
Hannah Pliner, Georgetown University
Brian Searle, Reed College
Aaron Wolf, Oberlin College
Katherine Xue, Harvard University

The University of Washington has been ranked #3 in Genetics / Genomics / Bioinformatics graduate programs by US News and World Report.

Dr. Judit Villen has been awarded the Robert J. Cotter New Investigator Award from the US Human Proteome Organization.

Grads Ethan Ahler (Fowler Lab), Michael Dorrity (Queitsch Lab), and Seungsoo Kim (rotation) have been awarded NSF fellowships as have incoming grads Molly Gasperini and Katherine Xue. Anne Clark, Tim Durham, Kelsey Lynch, and Cecilia Noecker received honorable mention.

Postdoctoral fellow Barbara Taskinen (Fowler Lab) has been awarded a two year fellowship from the Finnish Culture Foundation. She will be working on applying high-throughput sequencing to experimental protein evolution.

GS grad Benjamin Vernot has been awarded the Walter Fitch prize from the Society for Molecular Biology & Evolution.

Andrew Stergachis and Andrew Adey have received the Harold M. Weintraub Graduate Student Award for outstanding achievement in graduate studies.

Keisha Carlson
Thursday, August 21
"A novel sequencing method to explore two molecular mechanisms of rapid adaptation"
2:00, Foege Auditorium

Sharon Greenblum
Thursday, September 11
"Metagenomic systems biology: frameworks for modeling and characterization of the gut microbiome"
3:00, Foege Auditorium














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