Todd Wylie  Wylie_T@kids.wustl.edu

Assistant Professor, Department of Pediatrics, Washington University School of Medicine, St. Louis, MO

Laboratory Medicine

email: Wylie_T@kids.wustl.edu

phone: (314) 454-4525

I have over 19 years experience in large-scale genomics, applying biology, informatics, and analytic skills to a wide range of scientific research. I am highly experienced in the technology development and informatics operations of a large genome center. Early in my career, I contributed to the International Human Genome Sequencing Consortium that sequenced and mapped the first human genome [PMID: 11237011]. Subsequently, I contributed to the sequencing and analysis of other landmark model organism genomes, including mouse, macaque, platypus, soybean, zebrafish, toxoplasma, and numerous parasitic and free-living nematode species. More recently, I contributed my experience and analytic skills to the sequencing and publication of the first human cancer genome [PMID: 18987736], a patient with acute myeloid leukemia, as well as subsequent projects involving sequence data from human cancers. I worked 9 years in the area of technology development under Dr. Elaine R. Mardis, Co-Director of The McDonnell Genome Institute, managing a small, agile group of bioinformaticians. This role required being the informatics/analysis "glue" between the development wet lab, bioinformatics team, testing and training, and other collaborative groups at the institute. As such, I have extensive experience handling and analyzing high throughput sequencing data as produced by multiple next-generation sequencing platforms. Prior to joining the Department of Pediatrics, I directed Dr. George Weinstock's microbial computing group, focusing on software development and analysis in a lab applying DNA sequencing, genome-wide analysis, bioinformatics, and other genetic methods to the study of human and microbial genomes. I have an extensive background in targeted sequence capture, transcriptomics, and the analysis of whole exome data. As Department of Pediatrics faculty, my current focus is to collaborate with clinicians and basic scientists by using genomic approaches and bioinformatics to understand problems in medical microbiology, and improve diagnosis and treatment through applied genomics. Research interests: genomics; human microbiome; bacterial and viral characterization; transcriptomics and RNA-seq; Next-generation sequencing (NGS) technologies and related analyses; applied bioinformatics solutions in large-scale research; R&D pipeline and analytical software development; exome and custom targeted sequencing platforms; early-access sequencing technology evaluation and application; data visualization, representation, and set theory approaches for big data.

Education

  • B.S., Southern Illinois University Edwardsville, 1995

Training

  • Introduction to UNIX Programming, University of Missouri St. Louis (UMSL), St. Louis, MO, 1997 - 1997
  • Advanced UNIX Programming, University of Missouri St. Louis (UMSL), St. Louis, MO, 1997 - 1997
  • Introduction to C Programming, University of Missouri St. Louis (UMSL), St. Louis, MO, 1998 - 1998
  • Introduction to Perl RegExes for Bioinformaticians, Practical Innovation at BioCon, 2003 - 2003
  • Introduction to Dreamweaver MX, Washington University School of Medicine, St. Louis, MO, 2003 - 2003
  • Advanced Dreamweaver MX, Washington University School of Medicine, St. Louis, MO, 2003 - 2003
  • SynaMatix Training Program, Washington University School of Medicine, St. Louis, MO, 2006 - 2006
  • Perl Master Class: Intermediate Perl, Stonehenge Consulting Services, 2006 - 2006
  • Ensembl Workshop: Ensembl Core API / BioMart Web Services, Washington University School of Medicine, St. Louis, MO, 2007 - 2007
  • Big Nerd Ranch Cocoa Bootcamp, Big Nerd Ranch, 2008 - 2008
  • Early Access Training for Pacific Biosciences RS Platform, Pacific Biosciences, 2010 - 2010
  • Complete Genomics Data Training, Washington University School of Medicine, St. Louis, MO, 2010 - 2010
  • Pacific Biosciences Bioinformatics Workshop, Washington University School of Medicine, St. Louis, MO, 2012 - 2012
  • Computing for Data Analysis, Johns Hopkins Bloomberg School of Medicine, 2013 - 2013

Selected Publications

CLICK HERE to view my selected publications.