Nicholas Navin Publications

2015

Navin N.  The first five years of single-cell cancer genomics and beyond. Genome Res. 25(10):1499-507 PMCID: PMC4579335

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. 21(8):846-53. PubMed PMID: 26248267.

Wang Y and Navin N.  Advances and Applications of Single Cell Sequencing Technologies. Molecular Cell. 21;58(4):598-609 PMCID: PMC4441954.

Leung M, Wang Y, Waters J and Navin N.  SNES: Single Nuclei Exome Sequencing. Genome Biol 25;16:55 PMCID: PMC4373516.

Wang Y and Navin N. Advances and Applications of Single Cell DNA Sequencing Technologies. Molecular Cell 21;58(4):598-609 PMCID: PMC4441954.

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. 28;7(1):6. PMCID: PMC4343275

2014

Navin N. Cancer Genomics: One Cell at a Time. Genome Biol. 30;15(8):452 PMCID: PMC4281948.

Wang Y, Waters J, Leung M, Unruh A, Roh W, Shi X, Chen K, Scheet P, Vattathil S, Liang S, Multani A, Zhang H, Zhao R, Michor F, Meric-Bernstam F and Navin N. Clonal Evolution in Breast Cancer Revealed by Single Nucleus Genome Sequencing. Nature 512(7513): 155-60 PMCID: PMC4158312

Navin N.  Tumor evolution in response to chemotherapy: phenotype versus genotype. Cell Rep. 13;6(3):417-9. PMID: 24529750

2013

Chen K, Navin N, Wang Y, Schmidt K, Wallis J, Niu B, Fan X, Zhao H, Mclellan M, Hoadley K, Mardis M, Ley T, Perou C, Wilson R and Ding L. BreakTrans: Uncovering the Genomic Architecture of Gene Fusions.Genome Biol. 23;14(8):R87 PMCID: PMC4054677.

2012

Baslan, T., Kendall J., Troge J, Rodgers L, Cook K, Stepansky A, Esposito D, Muthuswamy L, Wigler M Navin N, Hicks J. Genome-Wide Copy Number Analysis of Single Cells. Nature Protocols 3;7(6):1024-41 PMID: 22555242

2011

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. 20(2):173-86. PMCID: PMC3176728

Navin N, Kendall J, Troge J, Rodgers L, Cook K, Stepansky A, Levy D, Lee Y, Esposito D, Peters A, Muthuswamy L,  McCombie R, Hicks J, Wigler M. Tumor Progression Revealed by Single Cell Sequencing Nature.7;472(7341):90-4 PMCID: PMC4504184

2010

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 Research. 20(1):68-80  PMCID: PMC2798832

2009

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. 113(6):1294-30 PMID: 18922857

2006

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. 103(52):19848-53. PMID: 17167050

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. 1;22(19):2437 PMID: 16740623

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. 16(12):1465-79. PMID: 17142309

2005

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. 70:51-63. PMID: 16869738

2004

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. 23;305(5683):525-8. PMID: 15273396

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. 13;101(28):10349-54. PMID: 15240876

2003

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. 29;278(35):33334-41. PMID: 12807903

Espanel X, Navin N, Kato Y, Tanokura M, Sudol M. Probing WW Domains to Uncover and Refine Determinants of Specificity in Ligand Recognition. Cytotechnology. 43 (1-3):105-11 PMID: 19003214

 

 

Review Articles

2011

Russnes G, Navin N, Hicks J, Borresen-Dale AL. Insight into the heterogeneity of breast cancer through next-generation sequencing. J Clin Invest. 21(10):3810-8 PMCID: PMC3195464

Navin N, Hicks J. Future Medical Applications of Single Cell Sequencing in Cancer. Genome Medicine 31;3(5):31 PMCID: PMC3219072

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. 17(4):257-63. PMID: 21799334

2010   

Navin N, Hicks, J. Tracing the Tumor Lineage.  Mol Onc. 4(3):267-283 PMCID: PMC2904844