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Completed Research Projects

Clinical Genomics

  • Prospective study of the predictive power of mass spectrometric profiles of plasma proteins and peptides in detecting early stage breast cancer
  • Contribution of ATM mutations to breast cancer susceptibility
  • Stanford Human OligoExome Resource
  • The Dynamics of the Vaginal Microbiome During Infertility Therapy with In Vitro Fertilization-Embryo Transfer
  • A New Human Transcriptome Array for Clinical Research
  • Use of Molecular Probes with Barcodes to Identify Microbes
  • A New Statistical Method for Time Course Microarray Experiments
  • Viral Metagenomics Discovering New Viruses
  • Wide Spectrum Viral And Target Gene Enrichment
  • High-throughput Proteomics for Biomarker Discovery
  • Network Knowledge Base Analysis of High-Throughput Genomic Data
  • Proximity Ligation for Protein Analyses - Multiplexing protein detection on DNA microarrays
  • Cell Specific Gene Expression Pattern in Severe Trauma
  • Inflammation and the host response to injury (Glue Grant)
  • A New Statistical Method for Analyzing Time Course Multifactor Expression Data
  • Computational Biology Group at SGTC and Data Interpretation Core of the Glue Grant
  • MIPs in cancer
  • A Knowledge-based Approach for Genome-wide Genotyping Analysis of Parkinson's Disease
  • Biomarker Detection in Colorectal Cancer

Computational Genomics

  • Computation for Genome Technology & Medicine
  • Computational Design of Oligonucleotide Bar Code Tag Sequences
  • Novel Affymetrix GeneChip Arrays: Large-Scale Data Visualization and Analysis

Functional Genomics

  • Functional Genomics of the Origin of Stem Cells
  • Identifying and studying small molecules that inhibit meiotic development and fertility in eukaryotic organisms
  • The Chemical Genomic Portrait of Yeast: Uncovering a Phenotype for All Genes
  • Expression Profiling at the Microscale
  • Complex Trait Analysis in Yeast
  • Mitochondria in genetics and disease: proteomics of yeast mitochondria
  • Yeast Genome Deletion Project
  • Haplotype and linkage block structure in human genome
  • Building technology to monitor alternative splicing on a genomic scale
  • Yeast Chemical Genomics

Sequencing

  • Gardnerella vaginalis genome project
  • Atopobium vaginae genome project
  • Biofuel yeast sequencing
  • Gene Expression Analysis of Human Endotoxin Response
  • YJM789 genome sequence
  • Comparative genetic history of Samaritan patri- and matrilineages based on Y-chromosome and mitochondrial DNA sequence variation
  • Maize gene discovery project: RescueMu and EST sequencing
  • Human sequencing project
  • Cryptococcus neoformans genome project
  • Malaria genome project: plasmodium falciparum chromosome 12
  • Candida albicans
  • Arabidopsis sequencing
  • Global expression studies of the Arabidopsis genome
  • Chlamydia
  • Saccharomyces

Computational Statistics

  • Molecular Diagnostic Probes
  • Analysis Tools for Clinical Genomics
  • Rapid Detection of Text Snippets
  • Integrated Knowledge Bases for Complex Biological Systems

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