Laboratory

Research Projects

UCSC Genome Browser
Funded by HHMI, NHGRI, NCI, and QB3

UCSC Cancer Genomics Browser
Funded by I-SPY, TCGA, QB3, NIH, Stand Up To Cancer, and HHMI

Stand Up To Cancer Breast Cancer Dream Team
Funded by Stand Up To Cancer

ENCODE
Funded by NHGRI

Roadmap Epigenomics Project—Reference Epigenome Mapping Centers
With UCSF, funded by NIEHS

GENCODE
Funded by NHGRI

GenomeSpace
Funded by NHGRI

Genome 10K Project
Funded by NHGRI, American Genetic Association, Moore Foundation, UCSC Foundation

Translational research—exploratory wet-lab validation of computational predictions
Funded by HHMI

Adam Ewing (831) 459-5232
Identifying structural variants—genomic alterations including deletions, duplications, and insertions—from high-throughput sequencing data and developing methods to determine their functional impact

Maximilian Haeussler (831) 459-5232
Integration of full-text biomedical literature with the UCSC genome browser and cancer genomics browser; cis-regulatory genome annotation

Karen Hayden (831) 459-5232
Developing a comprehensive map of centromere sequencing variation across a large number of individuals from distinct populations

Glenn Hickey (831) 459-5232
A computational framework for large-scale comparative genomics

Frank Jacobs (831) 459-1014
The biology of human brain evolution: Identification of primate- and human-specific neural enhancers through mapping of active regulatory DNA elements in cortical neurons derived from embryonic stem cells

Olena Morozova (831) 459-1014
Applying integrative genomics and bioinformatics approaches to study cancers of the nervous system

Wet Lab Research Staff

Wet lab phone (831) 459-1014

Sofie Salama
Research Biologist
Translational research—exploratory wet-lab validation of computational predictions

Bryan King
Research Technician

Jimi Rosenkrantz
Research Technician

Graduate Students

Tracy Ballinger
Characterizing insertions in cancer genomes to look for evidence of retrotransposition in tumors

Mark Diekhans
Cancer genomics hub, computational gene finding, UCSC Mammalian Gene Collection project (read about Mark's work on the Consensus Coding Sequence gene set in UCSC Currents) and the database of the Genome 10K Project

Dent Earl Comparative genomics, sequence analysis, tools to assess genome alignment and assembly methods

Andrew Field
Regulation of cortical neuron development from embryonic stem cells, focusing on the role ncRNAs play in this process

Ted Goldstein
Cancer pathway analysis

David Greenberg
Characterizing the biological function in mammalian brain development of genome regions that show accelerated changes in primates

Ngan Nguyen Immunogenomics, Database of the Genome 10K Project

Chris Szeto Development and use of the UCSC Cancer Genomics Browser

Mia Grifford
Emergence of drug resistance in cancer