Michael Wendl, Ph.D.,  McDonnell Genome Institute

Research Interests

Dr. Michael Wendl is broadly interested in the development and application of mathematical theory and computational methods for pressing problems in the biomedical and engineering sciences. He has participated in many of the "big biology" efforts of our time, including the Human Genome Project, and is lately part of a research group at the McDonnell Genome Institute focusing on cancer genomics. He is a leading expert in the industrial engineering aspects of DNA sequencing and a proponent of mathematical and scientific literacy for the general public. Wendl received BS (1989), MS (1990), and Doctoral (1994) degrees, all from Washington University, after which he joined the McDonnell Genome Institute.

Publications

title citation publication date
Proteogenomic integration reveals therapeutic targets in breast cancer xenografts. Nat Commun. 2017 Mar 28;8:14864. doi: 10.1038/ncomms14864. 2017-03-28
Tumor Evolution in Two Patients with Basal-like Breast Cancer: A Retrospective Genomics Study of Multiple Metastases PLoS Med. 2016 Dec 6;13(12):e1002174. doi: 10.1371/journal.pmed.1002174. eCollection 2016. 1970-08-22
Protein-structure-guided discovery of functional mutations across 19 cancer types. Nat Genet. 2016 Aug;48(8):827-37. doi: 10.1038/ng.3586. Epub 2016 Jun 13 1970-08-22
Divergent viral presentation among human tumors and adjacent normal tissues Sci Rep. 2016 Jun 24;6:28294. doi: 10.1038/srep28294. 1970-08-22
Patterns and functional implications of rare germline variants across 12 cancer types. Nat Commun. 2015 Dec 22;6:10086. doi: 10.1038/ncomms10086. 2015-12-15
Systematic discovery of complex insertions and deletions in human cancers. Nat Med. 2015 Dec 14. doi: 10.1038/nm.4002. [Epub ahead of print] 2015-12-14
Optimizing cancer genome sequencing and analysis. Cell Syst. 2015 Sep 23;1(3):210-223. 2015-09-23
Clonal architectures and driver mutations in metastatic melanomas. PLoS One. 2014 Nov 13;9(11):e111153. doi: 10.1371/journal.pone.0111153. eCollection 2014. 2014-11-13
Age-related mutations associated with clonal hematopoietic expansion and malignancies. Nat Med. 2014 Oct 19. doi: 10.1038/nm.3733. [Epub ahead of print] 2014-10-19
Comprehensive molecular profiling of lung adenocarcinoma. Nature. 2014 Jul 31;511(7511):543-50. doi: 10.1038/nature13385. Epub 2014 Jul 9. 2014-07-09
Expanding the computational toolbox for mining cancer genomes. Nat Rev Genet. 2014 Aug;15(8):556-70. doi: 10.1038/nrg3767. Epub 2014 Jul 8. 2014-08-01
Integrated analysis of germline and somatic variants in ovarian cancer. Nat Commun. 2014 Jan 22;5:3156. doi: 10.1038/ncomms4156. 2014-01-22
MSIsensor: microsatellite instability detection using paired tumor-normal sequence data. Bioinformatics. 2013 Dec 25. [Epub ahead of print] 2013-12-24
Mutational landscape and significance across 12 major cancer types. Nature. 2013 Oct 17;502(7471):333-9. doi: 10.1038/nature12634. 2013-10-17
Differences that matter in cancer genomics. Nat Biotechnol. 2013 Oct 8;31(10):892-893. doi: 10.1038/nbt.2715. 2013-10-08
The Cancer Genome Atlas Pan-Cancer analysis project. Nat Genet. 2013 Sep 26;45(10):1113-20. doi: 10.1038/ng.2764. 2013-09-26
The theory of discovering rare variants via DNA sequencing. BMC Genomics. 2009 Oct 20;10:485. doi: 10.1186/1471-2164-10-485. 2009-10-20
Genomic and Epigenomic Landscapes of Adult De Novo Acute Myeloid Leukemia. N Engl J Med. 2013 May 1. [Epub ahead of print] 2013-05-01
Advances for studying clonal evolution in cancer. Cancer Lett. 2013 Jan 23. pii: S0304-3835(13)00034-7. doi: 10.1016/j.canlet.2012.12.028. [Epub ahead of print] 2013-01-23
An integrated map of genetic variation from 1,092 human genomes. Nature. 2012 Nov 1;491(7422):56-65. doi: 10.1038/nature11632. 2012-11-01
Coverage theories for metagenomic DNA sequencing based on a generalization of Stevens' theorem. J Math Biol. 2012 Sep 11. [Epub ahead of print] 2012-09-11
Whole-genome analysis informs breast cancer response to aromatase inhibition. Nature. 2012 Jun 10;486(7403):353-60. doi: 10.1038/nature11143. 2012-06-10
The 1000 Genomes Project: data management and community access. Nat Methods. 2012 Apr 27;9(5):459-62. doi: 10.1038/nmeth.1974. 2012-04-27
MuSiC: Identifying mutational significance in cancer genomes. Genome Res. 2012 Jul 3. [Epub ahead of print] 2012-07-03
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] 2012-04-26
Cancer exome analysis reveals a T-cell-dependent mechanism of cancer immunoediting. Nature. 2012 Feb 8 [Epub ahead of print]. 2012-02-08
Clonal evolution in relapsed acute myeloid leukaemia revealed by whole-genome sequencing. Nature. 2012 Jan 11. doi: 10.1038/nature10738. [Epub ahead of print] 2012-01-11
The variant call format and VCFtools. Bioinformatics. 2011 Aug 1;27(15):2156-8. Epub 2011 Jun 7. 2011-08-01
The functional spectrum of low-frequency coding variation. Genome Biol. 2011 Sep 14;12(9):R84. [Epub ahead of print] 2011-09-14
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. 2011-06-12
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. 2011-07-19
Integrated genomic analyses of ovarian carcinoma Nature. 2011 Jun 29;474(7353):609-15. doi: 10.1038/nature10166. 2011-06-29
PathScan: A Tool for Discerning Mutational Significance in Groups of Putative Cancer Genes. Bioinformatics. 2011 Jun 15;27(12):1595-602. Epub 2011 Apr 14. 2011-04-14
Mapping copy number variation by population-scale genome sequencing. Nature. 2011 Feb 3;470(7332):59-65. 2011-02-03
Diversity of human copy number variation and multicopy genes. Science. 2010 Oct 29;330(6004):641-6. 2010-10-29
Analysis of next-generation genomic data in cancer: accomplishments and challenges. Hum Mol Genet. 2010 Oct 15;19(R2):R188-96. Epub 2010 Sep 15. 2010-10-15
A map of human genome variation from population-scale sequencing Nature. 2010 Oct 28;467(7319):1050-1. 2010-10-28
Genome remodelling in a basal-like breast cancer metastasis and xenograft. Nature. 2010 Apr 15;464(7291):989-90. 2010-04-15
Statistical aspects of discerning indel-type structural variation via DNA sequence alignment. BMC Genomics. 2009 Oct 20;10(1):485. [Epub ahead of print] 2009-10-20
BreakDancer: an algorithm for high-resolution mapping of genomic structural variation. Nat Methods. 2009 Sep;6(9):677-81. Epub 2009 Aug 9. 2009-09-06
Technology takes on deadlines for fetal human rights. Nature. 2009 Apr 16;458(7240):831. 2009-04-16
Somatic mutations affect key pathways in lung adenocarcinoma. Nature. 2008 Oct 23;455(7216):1069-75. 2008-10-23
Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature. 2008 Oct 23;455(7216):1061-8. Epub 2008 Sep 4. 2008-10-23
Aspects of coverage in medical DNA sequencing. BMC Bioinformatics. 2008 May 16;9:239. 2008-05-16
Open-source answer to bibliography problem. Nature. 2003 Aug 28;424(6952):995. 2003-07-10
H-index: however ranked, citations need context. Nature. 2007 Sep 27;449(7161):403. 2007-09-27
Design and implementation of a generalized laboratory data model. BMC Bioinformatics. 2007 Sep 26;8(1):362 [Epub ahead of print] 2007-09-26
PolyScan: An automatic indel and SNP detection approach to the analysis of human resequencing data. Genome Res. 2007 Apr 6; 2007-04-06
A general coverage theory for shotgun DNA sequencing. J Comput Biol. 2006 Jul-Aug;13(6):1177-96. 2006-08-08
Occupancy Modeling of Coverage Distribution for Whole Genome Shotgun DNA Sequencing Bulletin of Mathematical Biology, 68 (1), 179-196. 2006-04-25
Bioweapons could kill more in one strike than guns. Nature. 2005 Sep 8;437(7056):192. 2005-09-08
Extension of Lander-Waterman theory for sequencing filtered DNA libraries. BMC Bioinformatics. 2005 Oct 10;6:245. 2005-10-10
Initial sequence of the chimpanzee genome and comparison with the human genome Nature. 2005 Sep 1;437(7055):69-87. 2005-09-01
The question of forbidden knowledge. Science. 2005 Jun 10;308(5728):1549-50. 2005-06-10
Probabilistic assessment of clone overlapsin DNA fingerprint mapping via a priori models. J Comput Biol. 2005 Apr;12(3):283-97. 2005-05-04
Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Nature. 2005 Apr 7;434(7034):724-31. 2005-04-07
Initial sequencing and comparative analysis of the mouse genome. Nature. 2002 Dec 5;420(6915):520-62. 2002-12-05
Initial sequencing and analysis of the human genome. Nature. 2001 Feb 15;409(6822):860-921. 2001-02-15
Generalized gap model for bacterial artificial chromosome clone fingerprint mapping and shotgun sequencing. Genome Res. 2002 Dec;12(12):1943-9. 2002-12-01
Collision probability between sets of random variables. Statistics & Probability Letters, Volume 64, Issue 3, 15 September 2003, Pages 249-254. 2003-09-15
The DNA sequence of human chromosome 7. Nature. 2003 Jul 10;424(6945):157-64. 2003-07-10
Automated sequence preprocessing in a large-scale sequencing environment. Genome Res. 1998 Sep;8(9):975-84. 1998-09-01
Genome sequence of the nematode C. elegans: a platform for investigating biology. The C. elegans Sequencing Consortium. Science. 1998 Dec 11;282(5396):2012-8. Review. Erratum in: Science 1999 Jan 1;283(5398):35. Science 1999 Mar 26;283(5410):2103. Science 1999 Sep 3;285(5433):1493. 1998-12-10
Finishing the euchromatic sequence of the human genome Nature. 2004 Oct 21;431(7011):931-45. 2004-10-21
Base-calling of automated sequencer traces using phred. I. Accuracy assessment. Genome Res. 1998 Mar;8(3):175-85. 1998-02-28
Theories and applications for sequencing randomly selected clones. Genome Res. 2001 Feb;11(2):274-80. 2001-02-01
Gap statistics for whole genome shotgun DNA sequencing projects. Bioinformatics. 2004 Feb 12 [Epub ahead of print] 2004-02-12