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NICHOLAS NAVIN

TitleAssociate Professor
InstitutionMD Anderson
DepartmentGenetics
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.
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    1. Zafar H, Navin N, Chen K, Nakhleh L. SiCloneFit: Bayesian inference of population structure, genotype, and phylogeny of tumor clones from single-cell genome sequencing data. Genome Res. 2019 Oct 18. PMID: 31628257.
      View in: PubMed
    2. Corn PG, Heath EI, Zurita A, Ramesh N, Xiao L, Sei E, Li-Ning-Tapia E, Tu SM, Subudhi SK, Wang J, Wang X, Efstathiou E, Thompson TC, Troncoso P, Navin N, Logothetis CJ, Aparicio AM. Cabazitaxel plus carboplatin for the treatment of men with metastatic castration-resistant prostate cancers: a randomised, open-label, phase 1-2 trial. Lancet Oncol. 2019 Oct; 20(10):1432-1443. PMID: 31515154.
      View in: PubMed
    3. Zafar H, Tzen A, Navin N, Chen K, Nakhleh L. Comments on the model parameters in "SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models". Genome Biol. 2019 05 16; 20(1):95. PMID: 31096998.
      View in: PubMed
    4. Zhang Y, Xiong S, Liu B, Pant V, Celii F, Chau G, Elizondo-Fraire AC, Yang P, You MJ, El-Naggar AK, Navin NE, Lozano G. Somatic Trp53 mutations differentially drive breast cancer and evolution of metastases. Nat Commun. 2018 09 27; 9(1):3953. PMID: 30262850.
      View in: PubMed
    5. Schalck A, Bernatchez C, Navin N. Resident Breast T Cells: The Troops Are Already There. Trends Mol Med. 2018 10; 24(10):821-822. PMID: 30077643.
      View in: PubMed
    6. Kim C, Gao R, Sei E, Brandt R, Hartman J, Hatschek T, Crosetto N, Foukakis T, Navin NE. Chemoresistance Evolution in Triple-Negative Breast Cancer Delineated by Single-Cell Sequencing. Cell. 2018 05 03; 173(4):879-893.e13. PMID: 29681456.
      View in: PubMed
    7. Casasent AK, Schalck A, Gao R, Sei E, Long A, Pangburn W, Casasent T, Meric-Bernstam F, Edgerton ME, Navin NE. Multiclonal Invasion in Breast Tumors Identified by Topographic Single Cell Sequencing. Cell. 2018 01 11; 172(1-2):205-217.e12. PMID: 29307488.
      View in: PubMed
    8. Zafar H, Tzen A, Navin N, Chen K, Nakhleh L. SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models. Genome Biol. 2017 09 19; 18(1):178. PMID: 28927434.
      View in: PubMed
    9. Gao R, Kim C, Sei E, Foukakis T, Crosetto N, Chan LK, Srinivasan M, Zhang H, Meric-Bernstam F, Navin N. Nanogrid single-nucleus RNA sequencing reveals phenotypic diversity in breast cancer. Nat Commun. 2017 08 09; 8(1):228. PMID: 28794488.
      View in: PubMed
    10. Gausachs M, Borras E, Chang K, Gonzalez S, Azuara D, Delgado Amador A, Lopez-Doriga A, San Lucas FA, Sanjuan X, Paules MJ, Taggart MW, Davies GE, Ehli EA, Fowler J, Moreno V, Pineda M, You YN, Lynch PM, Lazaro C, Navin NE, Scheet PA, Hawk ET, Capella G, Vilar E. Mutational Heterogeneity in APC and KRAS Arises at the Crypt Level and Leads to Polyclonality in Early Colorectal Tumorigenesis. Clin Cancer Res. 2017 Oct 01; 23(19):5936-5947. PMID: 28645942.
      View in: PubMed
    11. Leung ML, Davis A, Gao R, Casasent A, Wang Y, Sei E, Vilar E, Maru D, Kopetz S, Navin NE. Single-cell DNA sequencing reveals a late-dissemination model in metastatic colorectal cancer. Genome Res. 2017 08; 27(8):1287-1299. PMID: 28546418.
      View in: PubMed
    12. Davis A, Gao R, Navin N. Tumor evolution: Linear, branching, neutral or punctuated? Biochim Biophys Acta Rev Cancer. 2017 Apr; 1867(2):151-161. PMID: 28110020.
      View in: PubMed
    13. Casasent AK, Edgerton M, Navin NE. Genome evolution in ductal carcinoma in situ: invasion of the clones. J Pathol. 2017 Jan; 241(2):208-218. PMID: 27861897.
      View in: PubMed
    14. Chen X, Love JC, Navin NE, Pachter L, Stubbington MJ, Svensson V, Sweedler JV, Teichmann SA. Single-cell analysis at the threshold. Nat Biotechnol. 2016 11 08; 34(11):1111-1118. PMID: 27824834.
      View in: PubMed
    15. Gao R, Davis A, McDonald TO, Sei E, Shi X, Wang Y, Tsai PC, Casasent A, Waters J, Zhang H, Meric-Bernstam F, Michor F, Navin NE. Punctuated copy number evolution and clonal stasis in triple-negative breast cancer. Nat Genet. 2016 10; 48(10):1119-30. PMID: 27526321.
      View in: PubMed
    16. Mann KM, Newberg JY, Black MA, Jones DJ, Amaya-Manzanares F, Guzman-Rojas L, Kodama T, Ward JM, Rust AG, van der Weyden L, Yew CC, Waters JL, Leung ML, Rogers K, Rogers SM, McNoe LA, Selvanesan L, Navin N, Jenkins NA, Copeland NG, Mann MB. Analyzing tumor heterogeneity and driver genes in single myeloid leukemia cells with SBCapSeq. Nat Biotechnol. 2016 09; 34(9):962-72. PMID: 27479497.
      View in: PubMed
    17. Navin NE, Chen K. Genotyping tumor clones from single-cell data. Nat Methods. 2016 06 29; 13(7):555-6. PMID: 27355792.
      View in: PubMed
    18. Davis A, Navin NE. Computing tumor trees from single cells. Genome Biol. 2016 05 26; 17(1):113. PMID: 27230879.
      View in: PubMed
    19. Zafar H, Wang Y, Nakhleh L, Navin N, Chen K. Monovar: single-nucleotide variant detection in single cells. Nat Methods. 2016 06; 13(6):505-7. PMID: 27088313.
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    20. Baslan T, Kendall J, Rodgers L, Cox H, Riggs M, Stepansky A, Troge J, Ravi K, Esposito D, Lakshmi B, Wigler M, Navin N, Hicks J. Corrigendum: Genome-wide copy number analysis of single cells. Nat Protoc. 2016 Mar; 11(3):616. PMID: 26914320.
      View in: PubMed
    21. Leung ML, Wang Y, Kim C, Gao R, Jiang J, Sei E, Navin NE. Highly multiplexed targeted DNA sequencing from single nuclei. Nat Protoc. 2016 Feb; 11(2):214-235. PMID: 26741407.
      View in: PubMed
    22. Navin NE. The first five years of single-cell cancer genomics and beyond. Genome Res. 2015 Oct; 25(10):1499-507. PMID: 26430160.
      View in: PubMed
    23. Alizadeh AA, Aranda V, Bardelli A, Blanpain C, Bock C, Borowski C, Caldas C, Califano A, Doherty M, Elsner M, Esteller M, Fitzgerald R, Korbel JO, Lichter P, Mason CE, Navin N, Pe'er D, Polyak K, Roberts CW, Siu L, Snyder A, Stower H, Swanton C, Verhaak RG, Zenklusen JC, Zuber J, Zucman-Rossi J. Toward understanding and exploiting tumor heterogeneity. Nat Med. 2015 Aug; 21(8):846-53. PMID: 26248267.
      View in: PubMed
    24. Navin NE. Delineating cancer evolution with single-cell sequencing. Sci Transl Med. 2015 Jul 15; 7(296):296fs29. PMID: 26180099.
      View in: PubMed
    25. Wang Y, Navin NE. Advances and applications of single-cell sequencing technologies. Mol Cell. 2015 May 21; 58(4):598-609. PMID: 26000845.
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    26. Leung ML, Wang Y, Waters J, Navin NE. SNES: single nucleus exome sequencing. Genome Biol. 2015 Mar 25; 16:55. PMID: 25853327.
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    27. Malhotra A, Wang Y, Waters J, Chen K, Meric-Bernstam F, Hall IM, Navin NE. Ploidy-Seq: inferring mutational chronology by sequencing polyploid tumor subpopulations. Genome Med. 2015; 7(1):6. PMID: 25729435.
      View in: PubMed
    28. Navin NE. Cancer genomics: one cell at a time. Genome Biol. 2014 Aug 30; 15(8):452. PMID: 25222669.
      View in: PubMed
    29. Wang Y, Waters J, Leung ML, Unruh A, Roh W, Shi X, Chen K, Scheet P, Vattathil S, Liang H, Multani A, Zhang H, Zhao R, Michor F, Meric-Bernstam F, Navin NE. Clonal evolution in breast cancer revealed by single nucleus genome sequencing. Nature. 2014 Aug 14; 512(7513):155-60. PMID: 25079324.
      View in: PubMed
    30. Navin NE. Tumor evolution in response to chemotherapy: phenotype versus genotype. Cell Rep. 2014 Feb 13; 6(3):417-9. PMID: 24529750.
      View in: PubMed
    31. Chen K, Navin NE, Wang Y, Schmidt HK, Wallis JW, Niu B, Fan X, Zhao H, McLellan MD, Hoadley KA, Mardis ER, Ley TJ, Perou CM, Wilson RK, Ding L. BreakTrans: uncovering the genomic architecture of gene fusions. Genome Biol. 2013 Aug 23; 14(8):R87. PMID: 23972288.
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    32. Baslan T, Kendall J, Rodgers L, Cox H, Riggs M, Stepansky A, Troge J, Ravi K, Esposito D, Lakshmi B, Wigler M, Navin N, Hicks J. Genome-wide copy number analysis of single cells. Nat Protoc. 2012 May 03; 7(6):1024-41. PMID: 22555242.
      View in: PubMed
    33. Russnes HG, Navin N, Hicks J, Borresen-Dale AL. Insight into the heterogeneity of breast cancer through next-generation sequencing. J Clin Invest. 2011 Oct; 121(10):3810-8. PMID: 21965338.
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    34. Chen M, Pratt CP, Zeeman ME, Schultz N, Taylor BS, O'Neill A, Castillo-Martin M, Nowak DG, Naguib A, Grace DM, Murn J, Navin N, Atwal GS, Sander C, Gerald WL, Cordon-Cardo C, Newton AC, Carver BS, Trotman LC. Identification of PHLPP1 as a tumor suppressor reveals the role of feedback activation in PTEN-mutant prostate cancer progression. Cancer Cell. 2011 Aug 16; 20(2):173-86. PMID: 21840483.
      View in: PubMed
    35. Blake PM, Decker DA, Glennon TM, Liang YM, Losko S, Navin N, Suh KS. Toward an integrated knowledge environment to support modern oncology. Cancer J. 2011 Jul-Aug; 17(4):257-63. PMID: 21799334.
      View in: PubMed
    36. Navin N, Hicks J. Future medical applications of single-cell sequencing in cancer. Genome Med. 2011 May 31; 3(5):31. PMID: 21631906.
      View in: PubMed
    37. Navin N, Kendall J, Troge J, Andrews P, Rodgers L, McIndoo J, Cook K, Stepansky A, Levy D, Esposito D, Muthuswamy L, Krasnitz A, McCombie WR, Hicks J, Wigler M. Tumour evolution inferred by single-cell sequencing. Nature. 2011 Apr 07; 472(7341):90-4. PMID: 21399628.
      View in: PubMed
    38. Navin NE, Hicks J. Tracing the tumor lineage. Mol Oncol. 2010 Jun; 4(3):267-83. PMID: 20537601.
      View in: PubMed
    39. Navin N, Krasnitz A, Rodgers L, Cook K, Meth J, Kendall J, Riggs M, Eberling Y, Troge J, Grubor V, Levy D, Lundin P, Månér S, Zetterberg A, Hicks J, Wigler M. Inferring tumor progression from genomic heterogeneity. Genome Res. 2010 Jan; 20(1):68-80. PMID: 19903760.
      View in: PubMed
    40. Grubor V, Krasnitz A, Troge JE, Meth JL, Lakshmi B, Kendall JT, Yamrom B, Alex G, Pai D, Navin N, Hufnagel LA, Lee YH, Cook K, Allen SL, Rai KR, Damle RN, Calissano C, Chiorazzi N, Wigler M, Esposito D. Novel genomic alterations and clonal evolution in chronic lymphocytic leukemia revealed by representational oligonucleotide microarray analysis (ROMA). Blood. 2009 Feb 05; 113(6):1294-303. PMID: 18922857.
      View in: PubMed
    41. Pelham RJ, Rodgers L, Hall I, Lucito R, Nguyen KC, Navin N, Hicks J, Mu D, Powers S, Wigler M, Botstein D. Identification of alterations in DNA copy number in host stromal cells during tumor progression. Proc Natl Acad Sci U S A. 2006 Dec 26; 103(52):19848-53. PMID: 17167050.
      View in: PubMed
    42. Hicks J, Krasnitz A, Lakshmi B, Navin NE, Riggs M, Leibu E, Esposito D, Alexander J, Troge J, Grubor V, Yoon S, Wigler M, Ye K, Børresen-Dale AL, Naume B, Schlicting E, Norton L, Hägerström T, Skoog L, Auer G, Månér S, Lundin P, Zetterberg A. Novel patterns of genome rearrangement and their association with survival in breast cancer. Genome Res. 2006 Dec; 16(12):1465-79. PMID: 17142309.
      View in: PubMed
    43. Navin N, Grubor V, Hicks J, Leibu E, Thomas E, Troge J, Riggs M, Lundin P, Månér S, Sebat J, Zetterberg A, Wigler M. PROBER: oligonucleotide FISH probe design software. Bioinformatics. 2006 Oct 01; 22(19):2437-8. PMID: 16740623.
      View in: PubMed
    44. Hicks J, Muthuswamy L, Krasnitz A, Navin N, Riggs M, Grubor V, Esposito D, Alexander J, Troge J, Wigler M, Maner S, Lundin P, Zetterberg A. High-resolution ROMA CGH and FISH analysis of aneuploid and diploid breast tumors. Cold Spring Harb Symp Quant Biol. 2005; 70:51-63. PMID: 16869738.
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    45. Sebat J, Lakshmi B, Troge J, Alexander J, Young J, Lundin P, Månér S, Massa H, Walker M, Chi M, Navin N, Lucito R, Healy J, Hicks J, Ye K, Reiner A, Gilliam TC, Trask B, Patterson N, Zetterberg A, Wigler M. Large-scale copy number polymorphism in the human genome. Science. 2004 Jul 23; 305(5683):525-8. PMID: 15273396.
      View in: PubMed
    46. Thomas EE, Srebro N, Sebat J, Navin N, Healy J, Mishra B, Wigler M. Distribution of short paired duplications in mammalian genomes. Proc Natl Acad Sci U S A. 2004 Jul 13; 101(28):10349-54. PMID: 15240876.
      View in: PubMed
    47. Espanel X, Navin N, Kato Y, Tanokura M, Sudol M. Probing WW Domains to Uncover and Refine Determinants of Specificity in Ligand Recognition. Cytotechnology. 2003 Nov; 43(1-3):105-11. PMID: 19003214.
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    48. Komuro A, Nagai M, Navin NE, Sudol M. WW domain-containing protein YAP associates with ErbB-4 and acts as a co-transcriptional activator for the carboxyl-terminal fragment of ErbB-4 that translocates to the nucleus. J Biol Chem. 2003 Aug 29; 278(35):33334-41. PMID: 12807903.
      View in: PubMed
    49. Highly multiplexed targeted DNA sequencing from single nuclei. Nature Protocols. 11:214-235.
    50. Genotyping tumor clones from single-cell data. Nature Methods. 13:555-556.
    51. Corrigendum to "Tracing the tumor lineage" [Mol. Oncol. 4 (2010) 267-283]. Molecular Oncology. 5:302.
    52. Single-cell analysis at the threshold. Nature Biotechnology. 34:1111-1118.
    53. Delineating cancer evolution with single-cell sequencing. Science Translational Medicine. 7.
    54. Ploidy-Seq. Genome Medicine. 7.
    55. The first five years of single-cell cancer genomics and beyond. Genome Research. 25:1499-1507.
    56. Genome evolution in ductal carcinoma in situ. Journal of Pathology. 241:208-218.
    57. Analyzing tumor heterogeneity and driver genes in single myeloid leukemia cells with SBCapSeq. Nature Biotechnology. 34:962-972.
    58. Punctuated copy number evolution and clonal stasis in triple-negative breast cancer. Nature Genetics.
    59. Computing tumor trees from single cells. Genome Biology. 17.
    60. Monovar. Nature Methods.
    61. Erratum. Nature Protocols. 11:616.
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