Research Publications Google Scholar Link  PudMed Link  2016 Gao R, Davis A, McDonald T, Sei E, Shi X, Wang Y, Tsai P, Casasent A, Waters J, Zhang H, Meric-Bernstam F, Michor F and Navin N. Punctuated Copy Number Evolution and Clonal Stasis in Triple-Negative Breast Cancer. (2016). Nature Genetics. July 29.  Navin N and Chen K. Genotyping tumor clones from single-cell data. Nature Methods (2016). Jun 29;13(7):555-6. PMID:27355792  Davis A and Navin N. Computing tumor trees from single cells. Genome Biol. (2016) May 26;17(1):113. PMID: 27230879  Zafar H, Wang Y, Nahkleh L, Navin N & Chen K. Monovar: Single Nucleotide Variant Detection in Single Cells. Nature Methods. 2016. April 18. PMID:27088313  Leung M & Wang Y, Kim C, Gao R, Jiang J, Sei E and Navin NE. Highly-multiplexed targeted DNA sequencing from single nuclei. Nature Protocols. 2016. Feb;11(2):214-35. PMID: 26741407 2015 Navin N. The First Five Years of Single Cell Genome Sequencing and Beyond. (2015) Genome Biology. Oct;25(10):1499-507. PMID: 26430160 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. doi: 10.1038/nm.3915. PMID: 26248267 Navin N. Delineating Cancer Evolution With Single-Cell Sequencing. (2015) Science Trans. Med. Jul15;7(296) PMID: 26180099 Wang Y and Navin N. Advances and Applications of Single Cell Sequencing Technologies. (2015) Molecular Cell. May 22. PMID: 26000845  Leung M, Wang Y, Waters J and Navin N. SNES: Single Nuclei Exome Sequencing. Genome  Bio (2015). Feb 28. PMID: 25853327 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 Jan 28;7(1):6. PMID: 25729435  2014  Navin N. Cancer Genomics: One Cell at a Time. (2014) Genome Biol. Aug 30;15(8):452   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. (2014) NATURE. Aug 14;512(7513):  155-60 Navin N. Tumor Evolution in Response to Chemotherapy: Phenotype vs. Genotype. Cell  Reports (2014). Feb 15. 13;6(3):417-9  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 (2013) Genome Biology. Aug 2013. 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 (2012) Nature  Protocols. Apr 2012. 2011  Navin N, Kendall J, Troge J, Rodgers L, Cook K, Stepansky A, Levy D, Lee Y, Esposito D,  Muthuswamy L, Hicks J, Wigler M. Tumor Evolution Inferred by Single Cell Sequencing  (2011) NATURE. April 7;472(7341):90-4 PMID 21399628 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 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 3;121(10):3810-8.  PMID:21965338 Navin N, Hicks J. Future Medical Applications of Single Cell Sequencing in Cancer.  Genome Med (2011) May 31;3(5):31 PMID:21631906 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.  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. 2010. Jan 20(1):68-80  PMID:19903760 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. 2009 Feb 5;113(6):1294-303 2008  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 1;22(19):2437  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.  Hicks J, Krasnitz A, Lakshmi B, Navin N, 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. 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.  2005;70:51-63. 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. 2004 Jul 23;305(5683):525-8. 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. Epub 2004 Jul 6. 2003 Komuro A, Nagai M, Navin N, 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. 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   

Research Publications

2016

Gao R, Davis A, McDonald T, Sei E, Shi X, Wang Y, Tsai P, Casasent A, Waters J, Zhang H, Meric-Bernstam F, Michor F and Navin N. Punctuated Copy Number Evolution and Clonal Stasis in Triple-Negative Breast Cancer. (2016). Nature Genetics. July 29.

Navin N and Chen K. Genotyping tumor clones from single-cell data. Nature Methods (2016). Jun 29;13(7):555-6. PMID:27355792

Davis A and Navin N. Computing tumor trees from single cells. Genome Biol. (2016) May 26;17(1):113. PMID: 27230879

Zafar H, Wang Y, Nahkleh L, Navin N & Chen K. Monovar: Single Nucleotide Variant Detection in Single Cells. Nature Methods. 2016. April 18. PMID:27088313

Leung M & Wang Y, Kim C, Gao R, Jiang J, Sei E and Navin NE. Highly-multiplexed targeted DNA sequencing from single nuclei. Nature Protocols. 2016. Feb;11(2):214-35. PMID: 26741407

2015

Navin N. The First Five Years of Single Cell Genome Sequencing and Beyond. (2015) Genome Biology. Oct;25(10):1499-507. PMID: 26430160

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. doi: 10.1038/nm.3915. PMID: 26248267

Navin N. Delineating Cancer Evolution With Single-Cell Sequencing. (2015) Science Trans. Med. Jul15;7(296) PMID: 26180099

Wang Y and Navin N. Advances and Applications of Single Cell Sequencing Technologies. (2015) Molecular Cell. May 22. PMID: 26000845

Leung M, Wang Y, Waters J and Navin N. SNES: Single Nuclei Exome Sequencing. Genome
Bio (2015). Feb 28. PMID: 25853327

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 Jan 28;7(1):6. PMID: 25729435

2014

Navin N. Cancer Genomics: One Cell at a Time. (2014) Genome Biol. Aug 30;15(8):452

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. (2014) NATURE. Aug 14;512(7513):
155-60

Navin N. Tumor Evolution in Response to Chemotherapy: Phenotype vs. Genotype. Cell
Reports (2014). Feb 15. 13;6(3):417-9

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 (2013) Genome Biology. Aug 2013.

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 (2012) Nature
Protocols. Apr 2012.

2011

Navin N, Kendall J, Troge J, Rodgers L, Cook K, Stepansky A, Levy D, Lee Y, Esposito D,
Muthuswamy L, Hicks J, Wigler M. Tumor Evolution Inferred by Single Cell Sequencing
(2011) NATURE. April 7;472(7341):90-4 PMID 21399628

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

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 3;121(10):3810-8.
PMID:21965338

Navin N, Hicks J. Future Medical Applications of Single Cell Sequencing in Cancer.
Genome Med (2011) May 31;3(5):31 PMID:21631906

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.

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. 2010. Jan 20(1):68-80
PMID:19903760

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. 2009 Feb 5;113(6):1294-303

2008

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 1;22(19):2437

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.

Hicks J, Krasnitz A, Lakshmi B, Navin N, 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.

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.
2005;70:51-63.

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. 2004 Jul 23;305(5683):525-8.

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. Epub 2004 Jul 6.

2003

Komuro A, Nagai M, Navin N, 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.

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