Li Ding, Ph.D.
Research Accomplishments & Interests
Dr. Li Ding joined The Genome Institute at Washington University in 2002. Prior to her move to St. Louis, Dr. Ding was at Incyte Genomics, where she worked on the in silico discovery of novel drugable genes and performed EST and microarray analyses to identify genes with differential expressions in different tissues and developmental/disease stages.
Since she joined The Genome Institute, she has led the development of a computational gene prediction tool, EAnnot, to perform genome-wide annotation. In 2005, she started to build the Medical Genomics group within the Institute. Since then, her group has developed a robust medical sequencing analysis pipeline that has been used for The Cancer Genome Atlas (TCGA) project, and other medical sequencing projects. Dr. Ding's research focuses on using a systematic approach to characterize molecular changes associated with cancer. Her goal is to identify key genes/pathways involved in carcinogenesis of different types of cancer to help develop diagnostic biomarkers and identify novel targets for drug development. The infrastructure development and research efforts in her group have helped the Institute's transition into a comprehensive multi-disciplinary genome research facility.
Other Biographical Information
Dr. Ding received a B.S. degree from Fudan University, a Ph.D. from the University of Utah under Dr. Stephen Prescott's guidance, and did her postdoctoral research in the Biochemistry Department at Stanford University.
Selected Publications
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
Chen F, Ding L.
Co-survival of the fittest few: mosaic amplification of receptor tyrosine kinases in glioblastoma.
Genome Biol. 2012 Jan 30;13(1):141. [Epub ahead of print] PubMed | View Abstract
St. Jude Children's Research Hospital-Washington University Pediatric Cancer Genome Project, Wu G, Broniscer A, McEachron…
Somatic histone H3 alterations in pediatric diffuse intrinsic pontine gliomas and non-brainstem glioblastomas.
Nat Genet. 2012 Jan 29 [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
Zhang J, Ding L, Holmfeldt L, Wu G, Heatley SL, Payne-Turner D, Easton J, Chen…
The genetic basis of early T-cell precursor acute lymphoblastic leukaemia.
Nature. 2012 Jan 11;481(7380):157-63. doi: 10.1038/nature10725. PubMed | View Abstract
Zhang J, Benavente CA, McEvoy J, Flores-Otero J, Ding L, Chen X, Ulyanov A, Wu…
A novel retinoblastoma therapy from genomic and epigenetic analyses.
Nature. 2012 Jan 11. doi: 10.1038/nature10733. [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
Marth GT, Yu F, Indap AR, Garimella K, Gravel S, Leong WF, Tyler-Smith C, Bainbridge…
The functional spectrum of low-frequency coding variation.
Genome Biol. 2011 Sep 14;12(9):R84. [Epub ahead of print] PubMed | View Abstract
Danecek P, Auton A, Abecasis G, Albers CA, Banks E, DePristo MA, Handsaker RE, Lunter…
The variant call format and VCFtools.
Bioinformatics. 2011 Aug 1;27(15):2156-8. Epub 2011 Jun 7. PubMed | View Abstract
Gravel S, Henn BM, Gutenkunst RN, Indap AR, Marth GT, Clark AG, Yu F, Gibbs…
Demographic history and rare allele sharing among human populations.
Proc Natl Acad Sci U S A. 2011 Jul 19;108(29):11983-11988. Epub 2011 Jul 5. PubMed | View Abstract
The Cancer Genome Atlas Research Network
Integrated genomic analyses of ovarian carcinoma
Nature. 2011 Jun 29;474(7353):609-15. doi: 10.1038/nature10166. PubMed | View Abstract
Wang J, Mullighan CG, Easton J, Roberts S, Heatley SL, Ma J, Rusch MC, Chen…
CREST maps somatic structural variation in cancer genomes with base-pair resolution.
Nat Methods. 2011 Jun 12. doi: 10.1038/nmeth.1628. [Epub ahead of print] PubMed | View Abstract
The 1000 Genomes Project, Conrad DF, Keebler JE, Depristo MA, Lindsay SJ, Zhang Y, Casals…
Variation in genome-wide mutation rates within and between human families.
Nat Genet. 2011 Jun 12;43(7):712-714. doi: 10.1038/ng.862. PubMed | View Abstract
