Li Ding, Ph.D.

Associate Professor
Internal Medicine

Computational and Systems Biology Program
Molecular Genetics and Genomics Program
Human and Statistical Genetics Program
Developmental, Regenerative and Stem Cell Biology Program

  • 314-286-1848

  • (314) 286-1848

  • 314-286-1810

  • 8501

  • 3201 McKinley Bldg.



  • Cancer genomics and proteomics

Research Abstract:

Dr. Li Ding joined the Genome Institute at Washington University in 2002. Dr. Ding has extensive experience in cancer genetics/genomics. She successfully led and completed the integrated analysis of a multi-institute study on the genomics of lung adenocarcinomas and identified key genes and pathways leading to lung cancer. Further, Dr. Ding led several cancer metastasis/relapse studies including the genome remodeling of a basal-like breast cancer and the clonal evolution of relapsed AML. Dr. Ding’s team has developed a suite of variant detection and interpretation tools including VarScan, SomaticSniper, CMDS, BreakDancer, BreakFusion, PathScan, Pindel-C, GenomeVIP, and MuSiC; many of them are widely used by the research community and have been applied in several large-scale projects such as The Cancer Genome Atlas (TCGA), the International Cancer Genome Consortium (ICGC), and the Pediatric Cancer Genome Project (PCGP).

Dr. Ding’s lab focuses on identifying and functionally characterizing somatic/germline genetic changes relevant to cancer initiation and progression as well as drug response using computational and experimental approaches. The ultimate goal of Dr. Ding`s research is to facilitate the translation of genomic findings into clinical practice.

Selected Publications:

Niu B, Scott AD, Sengupta S, Bailey MH, Batra P, Ning J, Wyczalkowski MA, Liang WW, Zhang Q, McLellan MD, Sun SQ, Tripathi P, Lou C, Ye K, Mashl RJ, Wallis J, Wendl MC, Chen F, Ding L. Protein-structure-guided discovery of functional mutations across 19 cancer types. Nature Genetics. 2016 Jun. PMID: 27294619

Lu C, Xie M, Wendl MC, Wang J, McLellan MD, Leiserson MD, Huang KL, Wyczalkowski MA, Jayasinghe R, Banerjee T, Ning J, Tripathi P, Zhang Q, Niu B, Ye K, Schmidt HK, Fulton RS, McMichael JF, Batra P, Kandoth C, Bharadwaj M, Koboldt DC, Miller CA, Kanchi KL, Eldred JM, Larson DE, Welch JS, You M, Ozenberger BA, Govindan R, Walter MJ, Ellis MJ, Mardis ER, Graubert TA, DiPersio JF, Ley TJ, Wilson RK, Goodfellow PJ, Raphael BJ, Chen F, Johnson KJ, Parvin JD, Ding L. Patterns and functional implications of rare germline variants across 12 cancer types. Nat Commun 2015 Dec 22;6:10086

Ye K, Wang J, Jayasinghe R, Lameijer EW, McMichael JF, Ning J, McLellan MD, Xie M, Cao S, Yellapantula V, Huang KL, Scott A, Foltz S, Niu B, Johnson KJ, Moed M, Slagboom PE, Chen F, Wendl MC, Ding L. Systematic discovery of complex insertions and deletions in human cancers. Nat Med 2015 Dec 14; [Epub ahead of print]

Zhang J, Walsh MF, Wu G, Edmonson MN, Gruber TA, Easton J, Hedges D, Ma X, Zhou X, Yergeau DA, Wilkinson MR, Vadodaria B, Chen X, McGee RB, Hines-Dowell S, Nuccio R, Quinn E, Shurtleff SA, Rusch M, Patel A, Becksfort JB, Wang S, Weaver MS, Ding L, Mardis ER, Wilson RK, Gajjar A, Ellison DW, Pappo AS, Pui CH, Nichols KE, Downing JR. Germline mutations in predisposition genes in pediatric cancer. N Engl J Med 2015 Dec 10;373(24):2336-2346

Griffith M, Miller CA, Griffith OL, Krysiak K, Skidmore ZL, Ramu A, Walker JR, Dang HX, Trani L, Larson DE, Demeter RT, Wendl MC, McMichael JF, Austin RE, Magrini V, McGrath SD, Ly A, Kulkarni S, Cordes MG, Fronick CC, Fulton RS, Maher CA, Ding L, Klco JM, Mardis ER, Ley TJ, Wilson RK. Optimizing cancer genome sequencing and analysis. Cell Syst 2015 Sep 23;1(3):210-223

Ruggles KV, Tang Z, Wang X, Grover H, Askenazi M, Teubl J, Cao S, McLellan MD, Clauser KR, Tabb DL, Mertins P, Slebos R, Erdmann-Gilmore P, Li S, Gunawardena HP, Xie L, Liu T, Zhou JY, Sun S, Hoadley KA, Perou CM, Chen X, Davies SR, Maher CA, Kinsinger CR, Rodland KD, Zhang H, Zhang Z, Ding L, Townsend RR, Rodriguez H, Chan D, Smith RD, Liebler DC, Carr SA, Payne S, Ellis MJ, Fenyo D. An analysis of the sensitivity of proteogenomic mapping of somatic mutations and novel splicing events in cancer. Mol Cell Proteomics 2015 Dec 2; [Epub ahead of print]

Xie M, Lu C, Wang J, McLellan MD, Johnson KJ, Wendl MC, McMichael JF, Schmidt HK, Yellapantula V, Miller CA, Ozenberger BA, Welch JS, Link DC, Walter MJ, Mardis ER, Dipersio JF, Chen F, Wilson RK, Ley TJ, Ding L. Age-related mutations associated with clonal hematopoietic expansion and malignancies. Nature Medicine. 2014 Oct 19. PMID: 25326804.

Ding L, Wendl MC, McMichael JF, Raphael BJ. Expanding the computational toolbox for mining cancer genomes. Nat Rev Genet. 2014 July. PMID: 25001846.

Kanchi K, Johnson K, Lu C, McLellan MD, Leiserson MD, Wendl MC, Zhang Q6, Koboldt DC, Xie M, Kandoth C, McMichael JF, Wyczalkowski MA, Larson DE, Schmidt HK, Miller CA, Fulton RS, Spellman PT, Mardis ER, Druley TE, Graubert TA, Goodfellow PJ, Raphael BJ, Wilson RK, Ding L. Integrated analysis of germline and somatic variants in ovarian cancer. Nature Communications. 2014 Jan 22;5, Article number: 3156 doi:10.1038/ncomms4156 PMID: 24448499.

Kandoth C, McLellan MD, Vandin F, Ye K, Niu B, Lu C, Xie M, Zhang Q, McMichael JF, Wyczalkowski MA, Leiserson MD, Miller CA, Welch JS, Walter MJ, Wendl MC, Ley TJ, Wilson RK, Raphael BJ, Ding L. Mutational landscape and significance across 12 major cancer types. Nature. 2013 Oct 17;502(7471):333-9. doi: 10.1038/nature12634. PMID: 24132290.

Dees ND, Zhang Q, Kandoth C, Wendl MC, Schierding W, Koboldt DC, Mooney TB, Callaway MB, Dooling D, Mardis ER, Wilson RK, Ding L. MuSiC: Identifying mutational significance in cancer genomes. Genome Res. 2012 Aug;22(8):1589-98. PMID: 22759861.

Ding L, Ley TJ, Larson DE, Miller CA, Koboldt DC, Welch JS, Ritchey JK, Young MA, Lamprecht T, McLellan MD, et al. Clonal evolution in relapsed acute myeloid leukaemia revealed by whole-genome sequencing. Nature. 2012 Jan 11;481(7382):506-10. PMID: 22237025.

Zhang J, Ding L, Holmfeldt L, Wu G, Heatley SL, Payne-Turner D, Easton J, Chen X, Wang J, Rusch M, et al. The genetic basis of early T-cell precursor acute lymphoblastic leukaemia. Nature. 2012 Jan 11;481(7380):157-63. PMID: 22237106.

Wendl MC, Wallis JW, Lin L, Kandoth C, Mardis ER, Wilson RK, Ding L. PathScan: a tool for discerning mutational significance in groups of putative cancer genes. Bioinformatics. 2011 Jun 15;27(12):1595-602. PMID: 21498403.

Ley TJ, Ding L, Walter MJ, McLellan MD, Lamprecht T, Larson DE, Kandoth C, Payton JE, Baty J, Welch J, et al. N Engl J Med. 2010 Dec 16;363(25):2424-33. PMID: 21067377.

Ding L, Ellis MJ, Li S, Larson DE, Chen K, Wallis JW, Harris CC, McLellan MD, Fulton RS, Fulton LL, et al. Genome remodelling in a basal-like breast cancer metastasis and xenograft. Nature 2010 Apr 15:464(7291):999-1005. PMID: 20393555

Chen K, Wallis JW, McLellan MD, Larson DE, Kalicki JM, Pohl CS, McGrath SD, Wendl MC, Zhang Q, Locke DP, Shi X, Fulton RS, Ley TJ, Wilson RK, Ding L, Mardis ER. BreakDancer: An algorithm for high-resolution mapping of genomic structural variation. Nat Methods 2009 Sep:6(9):677-81. PMID: 19668202

Koboldt DC, Chen K, Wylie T, Larson DE, McLellan MD, Mardis ER, Weinstock GM, Wilson RK, Ding L. VarScan: Variant detection in massively parallel sequencing of individual and pooled samples. Bioinformatics 2009 Sep 1:25(17):2283-5. PMID: 19542151.

Ley TJ, Mardis ER, Ding L, Fulton B, McLellan MD, Chen K, Dooling D, Dunford-Shore BH, McGrath S, Hickenbotham M, et al. Nature 2008 Nov 6:456(7218):66-72. PMID: 18987736

Last Updated: 12/20/2016 2:29:24 PM

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