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Jedidiah Carlson

Postdoctoral Fellow

Department of Genome Sciences

University of Washington, Seattle, WA

jed [dot] e [dot] carlson [at] gmail [dot] com


Professional Experience

2018-present

  • Senior Fellow, Department of Genome Sciences, University of Washington, Seattle, WA

Education

2015-2018

  • Ph.D., Bioinformatics, University of Michigan, Ann Arbor, MI
    • Doctoral co-advisers: Sebastian Zöllner & Jun Z. Li
    • Dissertation title: “Mapping the Landscape of Mutation Rate Heterogeneity in the Human Genome: Approaches and Applications”

2013-2015

  • M.S., Biostatistics, University of Michigan, Ann Arbor, MI
  • Certificate in Public Health Genetics, University of Michigan, Ann Arbor, MI

2008-2011

  • B.A., Mathematics, Bethel University, St. Paul, MN

Research Funding

2019-2021

  • Translational Data Science Postdoctoral Fellowship, Fred Hutchinson Cancer Research Center

2019

  • Genome Sciences Travel Award, University of Washington

2015-2017

  • Rackham Travel Grant, University of Michigan

2013-2016

  • Genome Science Training Program Fellowship (T32 HG00040), National Human Genome Research Institute

Honors and Awards

2017

  • Invited moderator for Natural Selection and Human Phenotypes session at the 67th Annual Meeting of The American Society of Human Genetics, Orlando, FL
  • Awarded “Best Graduate Student Talk” of the Fourth Midwest Population Genetics Conference, East Lansing, MI

2009-2012

  • Sigma Zeta Honor Society, Bethel University

2008-2012

  • President’s Scholarship, Bethel University
  • Edgar G. Johnson Physics Scholarship, Bethel University
  • National Merit Scholar

Papers

2019

  • Taliun D, Harris DN, Kessler MD, Carlson J, Szpiech ZA, Torres R, et al. Sequencing of 53,831 diverse genomes from the NHLBI TOPMed Program. Nature. [in press]. [bioRxiv preprint: doi:10.1101/563866].

2018

  • Carlson J, Locke AE, Flickinger M, Zawistowski M, Levy S, Myers RM, et al. Extremely rare variants reveal patterns of germline mutation rate heterogeneity in humans. Nat Commun. 2018;9: 3753. doi:10.1038/s41467-018-05936-5

  • Carlson J, Li JZ, Zöllner S. Helmsman: fast and efficient mutation signature analysis for massive sequencing datasets. BMC Genomics. 2018;19: 845. doi:10.1186/s12864-018-5264-y

Manuscripts in preparation

  • Carlson J, Hsieh PH, Harris K. Assessing the impact of demography and multinucleotide mutations on reference-free archaic admixture inference methods. [Manuscript in preparation].

  • Carlson J, Harris K. The mismeasure of tweets: classifying and interpreting the audiences engaging with scientific research on social media. [Manuscript in preparation].

  • Carlson J, Scott L, Heard-Costa NL, Cupples LA, Ramachandran VS, Myers RM, et al. Doomsayer: detection of batch effects and outliers in next-generation sequencing data using mutation signature analysis. [Manuscript in preparation].

  • Carlson J, Li JZ, Zöllner S. Context-dependent classification of human germline mutation hotspots. [Manuscript in preparation].

Software

2018

  • Carlson J. Helmsman: fast and efficient mutation signature analysis for massive sequencing datasets. (2018). doi:10.5281/zenodo.1480038

  • Carlson J. Doomsayer: quality control for whole-genome sequencing data using mutation signature analysis. (2018). doi:10.5281/zenodo.1285971

Conference Abstracts

2019

  • Probabilistic Modeling in Genomics, Aussois, France (poster)
  • Biology of Genomes Meeting, Cold Spring Harbor, NY (poster)

2017

  • DNA Repair and Genome Instability Satellite Meeting, 67th Annual Meeting of The American Society of Human Genetics, Orlando, FL (invited talk)
  • 67th Annual Meeting of The American Society of Human Genetics, Orlando, FL (poster)
  • Fourth Midwest Population Genetics Conference, East Lansing, MI (contributed talk)

2016

  • DNA Repair and Genome Instability Satellite Meeting, 66th Annual Meeting of The American Society of Human Genetics, Vancouver, Canada (invited talk)
  • 66th Annual Meeting of The American Society of Human Genetics, Vancouver, Canada (poster)
  • Third Midwest Population Genetics Conference, Chicago, IL (contributed talk)
  • Keystone Symposia: Understanding the Function of Human Genome Variation, Uppsala, Sweden (poster)
  • NHGRI Research Training and Career Development Annual Meeting, Bethesda, MD (poster)

2015

  • Second Midwest Population Genetics Conference, Ann Arbor, MI (contributed talk)
  • Biology of Genomes Meeting, Cold Spring Harbor, NY (poster)

2014

  • First Midwest Population Genetics Conference, Chicago, IL (poster)

Intramural Presentations

2019

  • UW PopGen Lunch (talk)
  • UW Genome Sciences Retreat (poster)
  • TOPMed DCC Race & Genetics Journal Club (invited talk)
  • UW Genomics Salon (invited talk)

2018

  • Center for Statistical Genetics group seminar (talk)

2017

  • Dordt College Statistical Genetics REU Symposium (invited talk)
  • Center for Statistical Genetics group seminar (talk)
  • Bioinformatics Student Research Hour (talk)

2016

  • Center for Statistical Genetics group seminar (talk)
  • Department of Computational Medicine and Bioinformatics Annual Retreat (poster)
  • Bioinformatics Student Research Hour (talk)

2015

  • Michigan Student Symposium for Interdisciplinary Statistical Sciences (poster)

2014

  • Center for Statistical Genetics group seminar (talk)
  • Genome Science Training Program orientation (invited talk)

Teaching Experience

2016-2018

  • Instructor, Big Data Summer Institute, University of Michigan

2011

  • Teaching Assistant, Department of Mathematics and Computer Science, Bethel University
  • Teaching Assistant, Department of Physics, Bethel University

2009-2011

  • Group Tutor, Department of Mathematics and Computer Science, Bethel University

Service

  • Ad hoc reviewer for Bioinformatics, Biology Direct, BMC Biology, Genome Research, Nature Communications, Science

2016-2017

  • Coordinator, University of Michigan Interdisciplinary Group Seminar

2015

  • Organizing committee, Midwest Population Genetics Conference

Professional Organizations

  • American Society of Human Genetics
  • Genetics Society of America
  • Society for Molecular Biology and Evolution

Outreach

  • Organizing committee, University of Michigan Teach-in for Freedom, Democracy, and Diversity

Quoted in the following articles:


Last updated: December, 2019