Chemistry and Computational Biology of the Stem Cell NicheUK Regenerative Medicine Platform (UKRMP)

• NGS (next generation sequencing) analysis• Whole genome sequence analysis• Exome sequence analysis• RNA-Seq analysis• De novo genome assembly• SNP, SNV and indel detection• Functional annotation of SNPs, SNVs and indels• Determination of structural and copy number variants• ChIP-Seq and ChIP-chip transcription factor binding motif analysis• Analysis of the methylome• Personalized and precision medicine• Identification of disease casual variants

• 2008 Pfizer Indications Discovery Delivery on Goals Award• Data Mining of Diverse Data Sources for Hypothesis Generation• Focus on Diabetes, Inflammatory Bowel Disease and Cancer• Secondary Focus on other Inflammatory Diseases• Coordination of All Genetic Analysis Information• Four-time recipient of the Individual Performance Award• Generated a Phase II drug trial for Multiple Myeloma• Co-Author of Washington University grant “Genotyping, Molecular Profiling and Sequencing of Inflammatory Bowel Disease Patients”• Co-Author of Washington University grant “Genotyping and Sequencing of Insulin Resistant Patients with Matched Tissue Samples”• Co-Author of Washington University grant “An Analysis of Public Genome-Wide Association Studies to Provide Confidence-in-Rationale for Pfizer Portfolio Targets and Pathways in Complex Human Diseases”• Indications Discovery “Connectivity Map Project” Lead• Indications Discovery “e-QTL Disease Project” Lead• Analysis of SNP disease association and knockout genetic data• Proposed more than 40 disease-drug repositioning opportunities

• Recipient of the Individual Performance Award• Study of Angiogenesis and Cancer Therapeutic Targets• Study of Osteoarthritis Targets• Study of Hypertension & Syndrome X/Metabolic Syndrome • Identification of colon cancer antibody targets (resulted in a Patent, a Drug Candidate Project and a Phase I Drug Trial)• Identification osteoarthritis candidate genes (resulted in a Phase II OA Pain Drug Trial and a Phase I General Pain Trial)• Identification of protein sequence motifs recognized and utilized by ADAMTS-4 & ADAMTS-5• Identification of genes involved in breast cancer pathology• Identification of genes involved in angiogenesis• Identification of a novel chemokine (CXCL17)• Analysis of linkage data for genes involved in Osteoarthritis• Analysis of SNP association data for genes involved in Metabolic Syndrome• Identification of genes involved multiple Metabolic Syndrome phenotypes

Searle Division of Monsanto• Focused on the possible therapeutic targets of Cancer• Analysis of large amounts of cDNA sequence information from murine and cell model systems• Text mining of literature information• Analysis of biological pathway information• Prediction of the cellular function of unknown disease candidate genes• Development of databases and bioinformatic analysis tools for bench scientists• Development and maintenance of web server with query tools for target discovery

Institute for Biomedical Computing and Center for Genetics in Medicine• Identification and Analysis of Human Disease Loci• Assembly and Analysis of Human Genomic Sequence• Gene Prediction and Prediction of Protein Function and Subcellular Localization• Determination of the molecular genetic basis for many human diseases• CpG island analysis• Analysis of genome repetitive elements• Analysis of recombination events resulting in human pathology• Analysis of human linkage data

Microbiology and Center for Genetics in Medicine• Early Member of the Human Genome Project (HGP) and a member of the Group that Assembled Map of Entire Human X Chromosome• PNAS paper sponsored by Nobel laureate Jim Watson• Isolation of very high molecular weight genomic DNA• Construction of genomic yeast artificial chromosome (YAC) libraries• Polymerase chain reaction application• Pulsed-field gel electrophoresis of yeast chromosomes and YACs• Restriction enzyme mapping of genomic DNA• Analysis of genomic sequence information• Genome mapping• Phylogenetic mapping• Gene and isoform prediction• Prediction of gene function• Prediction of the subcellular localization of hypothetical proteins• Identification of X-linked genes involved in human disease

• Study of Lymphocyte Differentiation• Study of ER Biogenesis• Study of ER Protein Sorting• Strong Immunology, Biochemistry and Molecular Biology Training• Plaque, RIA and ELISA assays• Subcellular fractionation of organelles by sucrose gradients• Preparation of highly purified ER• Purification of ER proteins of column chromatography• Maintenance of plasmacytomas and ascites tumors in mice• Antibody production in mice, rats and rabbits using highly purified proteins• Production of monoclonal antibody cell lines• Design of an immunoassay for antibodies to the ER• Maintenance of monoclonal antibody cell lines in nude mice• Northern, Southern and Western blot analysis• Purification of mRNA from plasmacytoma cell lines• Fractionation of mRNA by sucrose gradients• Reconstitution of cell-free protein synthesis from ascites tumors• Cell-free protein synthesis by rabbit reticulocyte lysate• Immunoprecipitation of specific ER proteins• Protein polyacrylamide gel electrophoresis• Construction of cDNA libraries• Isolation of cDNA clones• Sanger DNA sequencing • DNA and RNA agarose gel electrophoresis• N-terminal protein sequencing by Edman degradation• Computational assembly of DNA sequences• DNA and protein sequence analysis