David Larson, Ph.D.
Research Accomplishments & Interests
Dr. David Larson joined The Genome Institute in 2008 after completing his graduate work in Developmental Biology at Washington University in St. Louis. Since joining The Genome Institute, he has been part of the Medical Genomics group, working primarily on somatic single nucleotide variant discovery using next-generation sequencing data. He is currently Assistant Director of Human Genomics.
Dr. Larson's research focuses on the genetic basis of cancer. He is particularly interested in the role of cellular adhesion molecules in tumorigenesis. On a technical level, his research interests encompass improving sensitivity and specificity of somatic variant calling and detection of small indels in sequencing data. He also is interested in novel methods for visualizing next-generation sequencing information.
Other Biographical Information
Dr. Larson graduated from Indiana University in Bloomington with a B.S. in Biology in 2003. During his time there, he researched cellular polarity in the bacterium Caulobacter crescentus. In 2007, he received his Ph.D. in Developmental Biology from Washington University in St. Louis for work on live visualization of the Drosophila retina.
Selected Publications
Young MA, Larson DE, Sun CW, George DR, Ding L, Miller CA, Lin L, Pawlik…
Background Mutations in Parental Cells Account for Most of the Genetic Heterogeneity of Induced Pluripotent Stem Cells.
Cell Stem Cell. 2012 Apr 26. [Epub ahead of print] PubMed | View Abstract
Walter MJ, Shen D, Ding L, Shao J, Koboldt DC, Chen K, Larson DE, McLellan…
Clonal Architecture of Secondary Acute Myeloid Leukemia.
N Engl J Med. 2012 Mar 14. [Epub ahead of print] PubMed | View Abstract
Koboldt DC, Zhang Q, Larson DE, Shen D, McLellan MD, Lin L, Miller CA, Mardis…
VarScan 2: Somatic mutation and copy number alteration discovery in cancer by exome sequencing.
Genome Res. 2012 Feb 2. [Epub ahead of print] PubMed | View Abstract
Koboldt DC, Larson DE, Chen K, Ding L, Wilson RK.
Massively parallel sequencing approaches for characterization of structural variation.
Methods Mol Biol. 2012;838:369-84. PubMed | View Abstract
Ding L, Ley TJ, Larson DE, Miller CA, Koboldt DC, Welch JS, Ritchey JK, Young…
Clonal evolution in relapsed acute myeloid leukaemia revealed by whole-genome sequencing.
Nature. 2012 Jan 11. doi: 10.1038/nature10738. [Epub ahead of print] PubMed | View Abstract
Graubert T, Shen D, Ding L, Okeyo-Owuor T, Lunn CL, Shao J, Krysiak K, Harris…
Recurrent mutations in the U2AF1 splicing factor in myelodysplastic syndromes
Nature Genetics. 2011 Dec 11. [Advanced online publication] PubMed | View Abstract
Larson DE, Harris CC, Chen K, Koboldt DC, Abbott TE, Dooling DJ, Ley TJ, Mardis…
SomaticSniper: Identification of Somatic Point Mutations in Whole Genome Sequencing Data.
Bioinformatics. 2011 Dec 6. [Epub ahead of print] PubMed | View Abstract
Welch JS, Westervelt P, Ding L, Larson DE, Klco JM, Kulkarni S, Wallis J, Chen…
Use of Whole-Genome Sequencing to Diagnose a Cryptic Fusion Oncogene
JAMA. 2011 Apr 20;305(15):1577-84. PubMed | View Abstract
Wartman LD, Larson DE, Xiang Z, Ding L, Chen K, Lin L, Cahan P, Klco…
Sequencing a mouse acute promyelocytic leukemia genome reveals genetic events relevant for disease progression.
J Clin Invest. 2011 Mar 23. pii: 45284. doi: 10.1172/JCI45284. [Epub ahead of print] PubMed | View Abstract
Ley TJ, Ding L, Walter MJ, McLellan MD, Lamprecht T, Larson DE, Kandoth C, Payton…
DNMT3A Mutations in Acute Myeloid Leukemia
N Engl J Med. 2010 Nov 10. PubMed | View Abstract
Ding L, Ellis MJ, Li S, Larson DE, Chen K, Wallis JW, Harris CC, McLellan…
Genome remodelling in a basal-like breast cancer metastasis and xenograft.
Nature. 2010 Apr 15;464(7291):989-90. PubMed | View Abstract
Zhang Q, Ding L, Larson DE, Koboldt DC, McLellan MD, Chen K, Shi X, Kraja…
CMDS: a population-based method for identifying recurrent DNA copy number aberrations in cancer from high-resolution data.
Bioinformatics. 2009 Dec 23. [Epub ahead of print] PubMed | View Abstract
Mardis ER, Ding L, Dooling DJ, Larson DE, McLellan MD, Chen K, Koboldt DC, Fulton…
Recurring mutations found by sequencing an acute myeloid leukemia genome.
N Engl J Med. 2009 Sep 10;361(11):1058-66. Epub 2009 Aug 5. PubMed | View Abstract
Chen K, Wallis JW, McLellan MD, Larson DE, Kalicki JM, Pohl CS, McGrath SD, Wendl…
BreakDancer: an algorithm for high-resolution mapping of genomic structural variation.
Nat Methods. 2009 Sep;6(9):677-81. Epub 2009 Aug 9. PubMed | View Abstract
Koboldt DC, Chen K, Wylie T, Larson DE, McLellan MD, Mardis ER, Weinstock GM, Wilson…
VarScan: Variant detection in massively parallel sequencing of individual and pooled samples.
Bioinformatics. 2009 Sep 1;25(17):2283-5. Epub 2009 Jun 19. PubMed | View Abstract
