Andy Baxevanis |
National Human Genome Research Institute |
Develop an ENCODE data portal for non-sequence based data including coordinated data deposition and dissemination. |
Greg Crawford |
Duke University |
Identify DNase hypersensitive sites using high-throughput sequencing and microarray methods. |
Pieter De Jong |
Children's Hospital Oakland Research Institute |
Create clone resources to support comparative sequencing. |
Emmanouil Dermitzakis |
Wellcome Trust Sanger Institute |
Identify nucleotide variants that are associated with variations in levels of gene expression. |
Laura Elnitski |
National Human Genome Research Institute |
Design and implement a publicly-accessible database for the querying and retrieval of ENCODE data. |
Eric Green |
NIH Intramural Sequencing Center/ National Human Genome Research Institute |
Isolate BAC clones for ENCODE regions in multiple organisms; generate multispecies comparative genome sequence data for these ENCODE regions; develop computational tools for analysis of comparative genome sequences. |
Roland Green |
NimbleGen Systems, Inc. |
Map transcription factor binding sites and identify first exons/promoters using NimbleGen microarrays and ChIP-chip assays. |
Ross Hardison |
Pennsylvania State University |
Develop tools to analyze comparative genomic sequences and integrate functional data with the genome sequence. |
David Haussler |
University of California, Santa Cruz |
Develop ENCODE-specific views of the human genome using the Santa Cruz UCSC Browser; develop tools to analyze comparative genomic sequences and integrate functional data with the genome sequence. |
Steven Jones |
British Columbia Cancer Agency Genome Sciences Centre |
Generate whole genome data on gene expression; develop tools to identify regulatory elements from co-expressed genes. |
Kerstin Lindblad-Toh/ Michelle Clamp |
Broad Institute |
Develop methodologies, algorithms and software to generate regional alignments of multiple genomes in the ENCODE regions. |
Elliott Margulies |
National Human Genome Research Institute |
Develop and implement analytical methods to characterize evolutionarily constrained sequences and to establish their functional significance. |
Marco Marra |
British Columbia Cancer Agency Genome Sciences Centre |
Generate fingerprint maps and tiling paths for BACs isolated from the ENCODE regions in different species; identify alternatively spliced transcripts for genes in the ENCODE regions. |
Webb Miller |
Pennsylvania State University |
Develop tools to analyze comparative genomic sequences and integrate functional data with the genome sequence. |
Steve Salzberg |
The Institute for Genomic Research |
Develop computational tools to analyze comparative genomic
sequences, to find genes and to assemble genomes. |
Greg Schuler |
National Center for Biotechnology Information (NCBI), National Library of Medicine |
Coordinate ENCODE comparative genomic sequence data with NCBI. |
Zhiping Weng |
Boston University |
Use computation methods to identify cis-regulatory elements in alternative promoters. |