I have over 20 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 organisms, including mouse, macaque, platypus, soybean, zebrafish, toxoplasma, and numerous parasitic and free-living nematode species. I contributed 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 at The McDonnell Genome Institute (MGI) under Dr. Elaine R. Mardis, 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 for the study of human and microbial genomes. I also have an extensive background in targeted sequence capture, transcriptomics, and the analysis of whole exome data. My colleagues and I recently developed a comprehensive targeted sequence capture panel called ViroCap [PMID: 26395152], designed to enrich nucleic acid from DNA and RNA viruses. This tool will greatly enhance the study of eukaryotic DNA and RNA viruses and takes us closer to using high-throughput sequencing as a comprehensive viral diagnostic tool.
- Longitudinal Dynamics of Skin Bacterial Communities in the Context of Staphylococcus aureus DecolonizationLongitudinal Dynamics of Skin Bacterial Communities in the Context of Staphylococcus aureus DecolonizationFritz, S. A., Wylie, T. N., Gula, H., Hogan, P. G., Boyle, M. G., Muenks, C. E., Sullivan, M. L., Burnham, C. A. D. & Wylie, K. M., Apr 2022, In: Microbiology spectrum. 10, 2Research output: Contribution to journal › Article › peer-review
- Fecal microbiome and bile acid metabolome in adult short bowel syndromeBoutte, H. J., Chen, J., Wylie, T. N., Wylie, K. M., Xie, Y., Geisman, M., Prabu, A., Gazit, V., Tarr, P. I., Levin, M. S., Warner, B. W., Davidson, N. O. & Rubin, D. C., Jan 2022, In: American Journal of Physiology – Gastrointestinal and Liver Physiology. 322, 1, p. G154-G168Research output: Contribution to journal › Article › peer-review
- Chronic villitis of unknown etiology: Investigations into viral pathogenesisErnst, L. M., Bockoven, C., Freedman, A., Wang, V., Pellerite, M., Wylie, T. N. & Wylie, K. M., Apr 2021, In: Placenta. 107, p. 24-30 7 p.Research output: Contribution to journal › Article › peer-review
- ViroMatch: A computational pipeline for the detection of viral sequences from complex metagenomic dataViroMatch: A computational pipeline for the detection of viral sequences from complex metagenomic dataWylie, T. N. & Wylie, K. M., Mar 4 2021, In: Microbiology Resource Announcements. 10, 9, e01468-20.Research output: Contribution to journal › Article › peer-review
- The microbiome of the human female reproductive tractStout, M. J., Wylie, T. N., Gula, H., Miller, A. & Wylie, K. M., Feb 2020, In: Current Opinion in Physiology. 13, p. 87-93 7 p.Research output: Contribution to journal › Review article › peer-review