Michael C Wendl, PhD - Publications

Affiliations: 
1994-2017 Depts. of Genetics, Mathematics, and Mechanical Engineering Washington University, Saint Louis, St. Louis, MO 
Area:
thermo-fluids, differential equations, statistical genetics
Website:
wendl.weebly.com

46 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Huang KL, Wu Y, Primeau T, Wang YT, Gao Y, McMichael JF, Scott AD, Cao S, Wendl MC, Johnson KJ, Ruggles K, Held J, Payne SH, Davies SR, Dar A, et al. Regulated Phosphosignaling Associated with Breast Cancer Subtypes and Druggability. Molecular & Cellular Proteomics : McP. PMID 31196969 DOI: 10.1074/mcp.RA118.001243  0.96
2019 Wang F, Zhang S, Kim TB, Lin YY, Iqbal R, Wang Z, Mohanty V, Sircar K, Karam JA, Wendl MC, Meric-Bernstam F, Weinstein JN, Ding L, Mills GB, Chen K. Integrated transcriptomic-genomic tool Texomer profiles cancer tissues. Nature Methods. PMID 30988467 DOI: 10.1038/s41592-019-0388-9  0.96
2018 Sengupta S, Sun SQ, Huang KL, Oh C, Bailey MH, Varghese R, Wyczalkowski MA, Ning J, Tripathi P, McMichael JF, Johnson KJ, Kandoth C, Welch J, Ma C, Wendl MC, et al. Integrative omics analyses broaden treatment targets in human cancer. Genome Medicine. 10: 60. PMID 30053901 DOI: 10.1186/s13073-018-0564-z  0.96
2018 Bailey MH, Tokheim C, Porta-Pardo E, Sengupta S, Bertrand D, Weerasinghe A, Colaprico A, Wendl MC, Kim J, Reardon B, Ng PK, Jeong KJ, Cao S, Wang Z, Gao J, et al. Comprehensive Characterization of Cancer Driver Genes and Mutations. Cell. 173: 371-385.e18. PMID 29625053 DOI: 10.1016/j.cell.2018.02.060  0.96
2018 Huang KL, Mashl RJ, Wu Y, Ritter DI, Wang J, Oh C, Paczkowska M, Reynolds S, Wyczalkowski MA, Oak N, Scott AD, Krassowski M, Cherniack AD, Houlahan KE, Jayasinghe R, ... ... Wendl MC, et al. Pathogenic Germline Variants in 10,389 Adult Cancers. Cell. 173: 355-370.e14. PMID 29625052 DOI: 10.1016/j.cell.2018.03.039  0.96
2018 Ding L, Bailey MH, Porta-Pardo E, Thorsson V, Colaprico A, Bertrand D, Gibbs DL, Weerasinghe A, Huang KL, Tokheim C, Cortés-Ciriano I, Jayasinghe R, Chen F, Yu L, Sun S, ... ... Wendl MC, et al. Perspective on Oncogenic Processes at the End of the Beginning of Cancer Genomics. Cell. 173: 305-320.e10. PMID 29625049 DOI: 10.1016/j.cell.2018.03.033  0.96
2018 Jayasinghe RG, Cao S, Gao Q, Wendl MC, Vo NS, Reynolds SM, Zhao Y, Climente-González H, Chai S, Wang F, Varghese R, Huang M, Liang WW, Wyczalkowski MA, Sengupta S, et al. Systematic Analysis of Splice-Site-Creating Mutations in Cancer. Cell Reports. 23: 270-281.e3. PMID 29617666 DOI: 10.1016/j.celrep.2018.03.052  0.96
2018 Gao Q, Liang WW, Foltz SM, Mutharasu G, Jayasinghe RG, Cao S, Liao WW, Reynolds SM, Wyczalkowski MA, Yao L, Yu L, Sun SQ, Chen K, ... ... Wendl MC, et al. Driver Fusions and Their Implications in the Development and Treatment of Human Cancers. Cell Reports. 23: 227-238.e3. PMID 29617662 DOI: 10.1016/j.celrep.2018.03.050  0.96
2017 Wyczalkowski MA, Wylie KM, Cao S, McLellan MD, Flynn J, Huang M, Ye K, Fan X, Chen K, Wendl MC, Ding L. BreakPoint Surveyor: A Pipeline for Structural Variant Visualization. Bioinformatics (Oxford, England). PMID 28582538 DOI: 10.1093/bioinformatics/btx362  0.96
2017 Mashl RJ, Scott AD, Huang KL, Wyczalkowski MA, Yoon CJ, Niu B, DeNardo E, Yellapantula VD, Handsaker RE, Chen K, Koboldt DC, Ye K, Fenyö D, Raphael B, Wendl MC, et al. GenomeVIP: a cloud platform for genomic variant discovery and interpretation. Genome Research. PMID 28522612 DOI: 10.1101/gr.211656.116  0.96
2017 Huang KL, Li S, Mertins P, Cao S, Gunawardena HP, Ruggles KV, Mani DR, Clauser KR, Tanioka M, Usary J, Kavuri SM, Xie L, Yoon C, Qiao JW, Wrobel J, ... ... Wendl MC, et al. Corrigendum: Proteogenomic integration reveals therapeutic targets in breast cancer xenografts. Nature Communications. 8: 15479. PMID 28440318 DOI: 10.1038/ncomms15479  0.96
2017 Huang KL, Li S, Mertins P, Cao S, Gunawardena HP, Ruggles KV, Mani DR, Clauser KR, Tanioka M, Usary J, Kavuri SM, Xie L, Yoon C, Qiao JW, Wrobel J, ... ... Wendl MC, et al. Proteogenomic integration reveals therapeutic targets in breast cancer xenografts. Nature Communications. 8: 14864. PMID 28348404 DOI: 10.1038/ncomms14864  0.96
2017 Hoadley KA, Siegel MB, Kanchi KL, Miller CA, Ding L, Zhao W, He X, Parker JS, Wendl MC, Fulton RS, Demeter RT, Wilson RK, Carey LA, Perou CM, Mardis ER. Correction: Tumor Evolution in Two Patients with Basal-like Breast Cancer: A Retrospective Genomics Study of Multiple Metastases. Plos Medicine. 14: e1002222. PMID 28068332 DOI: 10.1371/journal.pmed.1002222  0.96
2016 Hoadley KA, Siegel MB, Kanchi KL, Miller CA, Ding L, Zhao W, He X, Parker JS, Wendl MC, Fulton RS, Demeter RT, Wilson RK, Carey LA, Perou CM, Mardis ER. Tumor Evolution in Two Patients with Basal-like Breast Cancer: A Retrospective Genomics Study of Multiple Metastases. Plos Medicine. 13: e1002174. PMID 27923045 DOI: 10.1371/journal.pmed.1002174  0.96
2016 Cao S, Wendl MC, Wyczalkowski MA, Wylie K, Ye K, Jayasinghe R, Xie M, Wu S, Niu B, Grubb R, Johnson KJ, Gay H, Chen K, Rader JS, Dipersio JF, et al. Divergent viral presentation among human tumors and adjacent normal tissues. Scientific Reports. 6: 28294. PMID 27339696 DOI: 10.1038/srep28294  0.96
2016 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, ... ... Wendl MC, et al. Protein-structure-guided discovery of functional mutations across 19 cancer types. Nature Genetics. PMID 27294619 DOI: 10.1038/ng.3586  0.44
2015 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, et al. Patterns and functional implications of rare germline variants across 12 cancer types. Nature Communications. 6: 10086. PMID 26689913 DOI: 10.1038/ncomms10086  0.44
2015 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, ... ... Wendl MC, et al. Systematic discovery of complex insertions and deletions in human cancers. Nature Medicine. PMID 26657142 DOI: 10.1038/nm.4002  0.44
2015 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, et al. Optimizing cancer genome sequencing and analysis. Cell Systems. 1: 210-223. PMID 26645048 DOI: 10.1016/j.cels.2015.08.015  0.96
2015 Kloosterman WP, Francioli LC, Hormozdiari F, Marschall T, Hehir-Kwa JY, Abdellaoui A, Lameijer EW, Moed MH, Koval V, Renkens I, van Roosmalen MJ, Arp P, Karssen LC, Coe BP, Handsaker RE, ... ... Wendl MC, et al. Characteristics of de novo structural changes in the human genome. Genome Research. 25: 792-801. PMID 25883321 DOI: 10.1101/gr.185041.114  0.44
2014 Ding L, Kim M, Kanchi KL, Dees ND, Lu C, Griffith M, Fenstermacher D, Sung H, Miller CA, Goetz B, Wendl MC, Griffith O, Cornelius LA, Linette GP, McMichael JF, et al. Clonal architectures and driver mutations in metastatic melanomas. Plos One. 9: e111153. PMID 25393105 DOI: 10.1371/journal.pone.0111153  0.44
2014 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, et al. Age-related mutations associated with clonal hematopoietic expansion and malignancies. Nature Medicine. 20: 1472-8. PMID 25326804 DOI: 10.1038/nm.3733  0.44
2014 Ding L, Wendl MC, McMichael JF, Raphael BJ. Expanding the computational toolbox for mining cancer genomes. Nature Reviews. Genetics. 15: 556-70. PMID 25001846 DOI: 10.1038/nrg3767  0.44
2014 Kanchi KL, Johnson KJ, Lu C, McLellan MD, Leiserson MD, Wendl MC, Zhang Q, Koboldt DC, Xie M, Kandoth C, McMichael JF, Wyczalkowski MA, Larson DE, Schmidt HK, Miller CA, et al. Integrated analysis of germline and somatic variants in ovarian cancer. Nature Communications. 5: 3156. PMID 24448499 DOI: 10.1038/ncomms4156  0.44
2014 Niu B, Ye K, Zhang Q, Lu C, Xie M, McLellan MD, Wendl MC, Ding L. MSIsensor: microsatellite instability detection using paired tumor-normal sequence data. Bioinformatics (Oxford, England). 30: 1015-6. PMID 24371154 DOI: 10.1093/bioinformatics/btt755  0.96
2013 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, et al. Mutational landscape and significance across 12 major cancer types. Nature. 502: 333-9. PMID 24132290 DOI: 10.1038/nature12634  0.44
2013 Ding L, Wendl MC. Differences that matter in cancer genomics. Nature Biotechnology. 31: 892-3. PMID 24104755 DOI: 10.1038/nbt.2715  0.96
2013 Ley TJ, Miller C, Ding L, Raphael BJ, Mungall AJ, Robertson G, Hoadley K, Triche TJ, Laird PW, Baty JD, Fulton LL, Fulton R, Heath SE, Kalicki-Veizer J, Kandoth C, ... ... Wendl MC, et al. Genomic and epigenomic landscapes of adult de novo acute myeloid leukemia New England Journal of Medicine. 368: 2059-2074. PMID 23634996 DOI: 10.1056/NadEJMoa1301689  0.44
2013 Ding L, Raphael BJ, Chen F, Wendl MC. Advances for studying clonal evolution in cancer. Cancer Letters. 340: 212-9. PMID 23353056 DOI: 10.1016/j.canlet.2012.12.028  0.44
2013 Wendl MC, Kota K, Weinstock GM, Mitreva M. Coverage theories for metagenomic DNA sequencing based on a generalization of Stevens' theorem. Journal of Mathematical Biology. 67: 1141-61. PMID 22965653 DOI: 10.1007/s00285-012-0586-x  0.44
2012 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 Research. 22: 1589-1598. PMID 22759861 DOI: 10.1101/gr.134635.111  0.44
2012 Ellis MJ, Ding L, Shen D, Luo J, Suman VJ, Wallis JW, Van Tine BA, Hoog J, Goiffon RJ, Goldstein TC, Ng S, Lin L, Crowder R, Snider J, Ballman K, ... ... Wendl MC, et al. Whole-genome analysis informs breast cancer response to aromatase inhibition. Nature. 486: 353-60. PMID 22722193 DOI: 10.1038/nature11143  0.44
2012 Young MA, Larson DE, Sun CW, George DR, Ding L, Miller CA, Lin L, Pawlik KM, Chen K, Fan X, Schmidt H, Kalicki-Veizer J, Cook LL, Swift GW, Demeter RT, ... Wendl MC, et al. Background mutations in parental cells account for most of the genetic heterogeneity of induced pluripotent stem cells. Cell Stem Cell. 10: 570-82. PMID 22542160 DOI: 10.1016/j.stem.2012.03.002  0.44
2012 Matsushita H, Vesely MD, Koboldt DC, Rickert CG, Uppaluri R, Magrini VJ, Arthur CD, White JM, Chen YS, Shea LK, Hundal J, Wendl MC, Demeter R, Wylie T, Allison JP, et al. Cancer exome analysis reveals a T-cell-dependent mechanism of cancer immunoediting. Nature. 482: 400-4. PMID 22318521 DOI: 10.1038/nature10755  0.44
2012 Ding L, Ley TJ, Larson DE, Miller CA, Koboldt DC, Welch JS, Ritchey JK, Young MA, Lamprecht T, McLellan MD, McMichael JF, Wallis JW, Lu C, Shen D, Harris CC, ... ... Wendl MC, et al. Clonal evolution in relapsed acute myeloid leukaemia revealed by whole-genome sequencing. Nature. 481: 506-10. PMID 22237025 DOI: 10.1038/nature10738  0.44
2011 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 (Oxford, England). 27: 1595-602. PMID 21498403 DOI: 10.1093/bioinformatics/btr193  0.44
2010 Ding L, Wendl MC, Koboldt DC, Mardis ER. Analysis of next-generation genomic data in cancer: Accomplishments and challenges Human Molecular Genetics. 19: R188-R196. PMID 20843826 DOI: 10.1093/hmg/ddq391  0.44
2010 Ding L, Ellis MJ, Li S, Larson DE, Chen K, Wallis JW, Harris CC, McLellan MD, Fulton RS, Fulton LL, Abbott RM, Hoog J, Dooling DJ, Koboldt DC, Schmidt H, ... ... Wendl MC, et al. Genome remodelling in a basal-like breast cancer metastasis and xenograft. Nature. 464: 999-1005. PMID 20393555 DOI: 10.1038/nature08989  0.44
2009 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, et al. BreakDancer: an algorithm for high-resolution mapping of genomic structural variation. Nature Methods. 6: 677-81. PMID 19668202 DOI: 10.1038/nmeth.1363  0.44
2008 Ding L, Getz G, Wheeler DA, Mardis ER, McLellan MD, Cibulskis K, Sougnez C, Greulich H, Muzny DM, Morgan MB, Fulton L, Fulton RS, Zhang Q, Wendl MC, Lawrence MS, et al. Somatic mutations affect key pathways in lung adenocarcinoma. Nature. 455: 1069-75. PMID 18948947 DOI: 10.1038/nature07423  0.44
2007 Wendl MC, Smith S, Pohl CS, Dooling DJ, Chinwalla AT, Crouse K, Hepler T, Leong S, Carmichael L, Nhan M, Oberkfell BJ, Mardis ER, Hillier LW, Wilson RK. Design and implementation of a generalized laboratory data model. Bmc Bioinformatics. 8: 362. PMID 17897463 DOI: 10.1186/1471-2105-8-362  0.44
2007 Chen K, McLellan MD, Ding L, Wendl MC, Kasai Y, Wilson RK, Mardis ER. PolyScan: an automatic indel and SNP detection approach to the analysis of human resequencing data. Genome Research. 17: 659-66. PMID 17416743 DOI: 10.1101/gr.6151507  0.96
2006 Mitreva M, Wendl MC, Martin J, Wylie T, Yin Y, Larson A, Parkinson J, Waterston RH, McCarter JP. Codon usage patterns in Nematoda: analysis based on over 25 million codons in thirty-two species. Genome Biology. 7: R75. PMID 26271136  0.44
2005 Hillier LW, Graves TA, Fulton RS, Fulton LA, Pepin KH, Minx P, Wagner-McPherson C, Layman D, Wylie K, Sekhon M, Becker MC, Fewell GA, Delehaunty KD, Miner TL, Nash WE, ... ... Wendl MC, et al. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. Nature. 434: 724-31. PMID 15815621 DOI: 10.1038/nature03466  0.44
2003 Hillier LW, Fulton RS, Fulton LA, Graves TA, Pepin KH, Wagner-McPherson C, Layman D, Maas J, Jaeger S, Walker R, Wylie K, Sekhon M, Becker MC, O'Laughlin MD, Schaller ME, ... ... Wendl MC, et al. The DNA sequence of human chromosome 7. Nature. 424: 157-64. PMID 12853948 DOI: 10.1038/nature01782  0.44
2002 Wendl MC, Waterston RH. Generalized gap model for bacterial artificial chromosome clone fingerprint mapping and shotgun sequencing Genome Research. 12: 1943-1949. PMID 12466299 DOI: 10.1101/gr.655102  0.44
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