Jonathan R Pollack

Jonathan R Pollack

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Jonathan R Pollack

Jonathan R Pollack

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A common phytoene synthase mutation underlies white petal varieties of the California poppy.

Sci Rep 2019 Aug 12;9(1):11615. Epub 2019 Aug 12.

Department of Pathology, Stanford University School of Medicine, Stanford, California, USA.

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http://dx.doi.org/10.1038/s41598-019-48122-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6690985PMC
August 2019

XPNPEP3 is a novel transcriptional target of canonical Wnt/β-catenin signaling.

Genes Chromosomes Cancer 2018 Jun 22;57(6):304-310. Epub 2018 Feb 22.

Laboratory of Molecular Oncology, Centre for DNA Fingerprinting and Diagnostics, Hyderabad, India.

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http://dx.doi.org/10.1002/gcc.22531DOI Listing
June 2018

Ca/nuclear factor of activated T cells signaling is enriched in early-onset rectal tumors devoid of canonical Wnt activation.

J Mol Med (Berl) 2018 02 9;96(2):135-146. Epub 2017 Nov 9.

Laboratory of Molecular Oncology, Centre for DNA Fingerprinting and Diagnostics, Nampally, Hyderabad, 500001, India.

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http://dx.doi.org/10.1007/s00109-017-1607-4DOI Listing
February 2018

SWI/SNF aberrations sensitize pancreatic cancer cells to DNA crosslinking agents.

Oncotarget 2018 Feb 8;9(11):9608-9617. Epub 2017 Aug 8.

Department of Pathology, Stanford University School of Medicine, Stanford, California, USA.

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http://dx.doi.org/10.18632/oncotarget.20033DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5839388PMC
February 2018

Genes co-amplified with or as novel potential cancer-promoting genes in gastric cancer.

Oncotarget 2017 Nov 21;8(54):92209-92226. Epub 2017 Sep 21.

Laboratory of Molecular Pathology and Cancer Genomics, College of Pharmacy, Seoul National University, Seoul, Korea.

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http://dx.doi.org/10.18632/oncotarget.21150DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5696175PMC
November 2017

BRAF inhibitor therapy of primary ameloblastoma.

Oral Surg Oral Med Oral Pathol Oral Radiol 2016 Oct 5;122(4):518-9. Epub 2016 Jul 5.

Stanford University School of Medicine, Stanford, CA, USA.

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http://dx.doi.org/10.1016/j.oooo.2016.05.017DOI Listing
October 2016

Ameloblastoma: a clinical review and trends in management.

Eur Arch Otorhinolaryngol 2016 Jul 30;273(7):1649-61. Epub 2015 Apr 30.

Division of Head and Neck Surgery, Department of Otolaryngology, Stanford University, 801 Welch Rd., MC 5739, Stanford, CA, 94305, USA.

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http://dx.doi.org/10.1007/s00405-015-3631-8DOI Listing
July 2016

BRAF inhibitor treatment of primary BRAF-mutant ameloblastoma with pathologic assessment of response.

Oral Surg Oral Med Oral Pathol Oral Radiol 2016 Jul 23;122(1):e5-7. Epub 2016 Feb 23.

Department of Pathology, Stanford University School of Medicine, Stanford, CA, USA. Electronic address:

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http://dx.doi.org/10.1016/j.oooo.2015.12.016DOI Listing
July 2016

Integrative Genomics Implicates EGFR as a Downstream Mediator in NKX2-1 Amplified Non-Small Cell Lung Cancer.

PLoS One 2015 10;10(11):e0142061. Epub 2015 Nov 10.

Department of Pathology, Stanford University School of Medicine, Stanford, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0142061PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4640868PMC
June 2016

SIRT7 inactivation reverses metastatic phenotypes in epithelial and mesenchymal tumors.

Sci Rep 2015 Apr 29;5:9841. Epub 2015 Apr 29.

1] Department of Medicine, Division of Endocrinology, Gerontology and Metabolism, School of Medicine, Stanford University, Stanford, California 94305, USA [2] Geriatric Research, Education, and Clinical Center, VA Palo Alto Health Care System, Palo Alto, California 94304, USA.

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http://dx.doi.org/10.1038/srep09841DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4413894PMC
April 2015

Integrative genomic and functional profiling of the pancreatic cancer genome.

BMC Genomics 2013 Sep 16;14:624. Epub 2013 Sep 16.

Departments of Pathology, Stanford University School of Medicine, 269 Campus Drive, CCSR-3245A, Stanford, CA 94305-5176, USA.

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http://dx.doi.org/10.1186/1471-2164-14-624DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3848637PMC
September 2013

The spectrum of SWI/SNF mutations, ubiquitous in human cancers.

PLoS One 2013 23;8(1):e55119. Epub 2013 Jan 23.

Department of Pathology, Stanford University School of Medicine, Stanford, California, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0055119PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3552954PMC
June 2013

CDX2 is an amplified lineage-survival oncogene in colorectal cancer.

Proc Natl Acad Sci U S A 2012 Nov 29;109(46):E3196-205. Epub 2012 Oct 29.

Department of Pathology, Stanford University School of Medicine, Stanford, CA 94305, USA.

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http://www.pnas.org/cgi/doi/10.1073/pnas.1206004109
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http://dx.doi.org/10.1073/pnas.1206004109DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3503165PMC
November 2012

A fused lasso latent feature model for analyzing multi-sample aCGH data.

Biostatistics 2011 Oct 3;12(4):776-91. Epub 2011 Jun 3.

Department of Biostatistics, Harvard University, Boston, MA 02115, USA.

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https://academic.oup.com/biostatistics/article-lookup/doi/10
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http://dx.doi.org/10.1093/biostatistics/kxr012DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3169672PMC
October 2011

Genomic instability in breast cancer: pathogenesis and clinical implications.

Mol Oncol 2010 Jun 9;4(3):255-66. Epub 2010 Apr 9.

Department of Pathology, Stanford University School of Medicine, CCSR-3245A, 269 Campus Drive, Stanford, CA 94305-5176, USA.

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http://doi.wiley.com/10.1016/j.molonc.2010.04.001
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http://dx.doi.org/10.1016/j.molonc.2010.04.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2904860PMC
June 2010

KIT mutations confer a distinct gene expression signature in core binding factor leukaemia.

Br J Haematol 2010 Mar 8;148(6):925-37. Epub 2010 Jan 8.

Department of Internal Medicine III, Ulm University, Albert-Einstein-Allee 23, Ulm, Germany.

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http://dx.doi.org/10.1111/j.1365-2141.2009.08035.xDOI Listing
March 2010

LYN is a mediator of epithelial-mesenchymal transition and a target of dasatinib in breast cancer.

Cancer Res 2010 Mar 9;70(6):2296-306. Epub 2010 Mar 9.

Department of Pathology and Division of Breast and Endocrine Surgery, Samsung Medical Center, Sungkyunkwan University School of Medicine, Seoul, Korea.

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http://dx.doi.org/10.1158/0008-5472.CAN-09-3141DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2869247PMC
March 2010

DR-Integrator: a new analytic tool for integrating DNA copy number and gene expression data.

Bioinformatics 2010 Feb 22;26(3):414-6. Epub 2009 Dec 22.

Department of Pathology, Stanford University, Stanford, CA, USA.

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http://dx.doi.org/10.1093/bioinformatics/btp702DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2815664PMC
February 2010

DNA microarray technology. Introduction.

Methods Mol Biol 2009 ;556:1-6

Department of Pathology, Stanford University, Stanford, CA, USA.

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http://dx.doi.org/10.1007/978-1-60327-192-9_1DOI Listing
September 2009

Comparative genomic hybridization on spotted oligonucleotide microarrays.

Methods Mol Biol 2009 ;556:21-32

Department of Pathology, Stanford University, Stanford, CA, USA.

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http://dx.doi.org/10.1007/978-1-60327-192-9_3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4209297PMC
September 2009

Integration of diverse microarray data types.

Methods Mol Biol 2009 ;556:205-16

Departments of Pathology and Genetics, Stanford University, Stanford, CA, USA.

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http://dx.doi.org/10.1007/978-1-60327-192-9_15DOI Listing
September 2009

MYC stimulates EZH2 expression by repression of its negative regulator miR-26a.

Blood 2008 Nov 19;112(10):4202-12. Epub 2008 Aug 19.

Institute of Physiological Chemistry, University of Ulm, Ulm, Germany.

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http://dx.doi.org/10.1182/blood-2008-03-147645DOI Listing
November 2008

Gene copy number variation spanning 60 million years of human and primate evolution.

Genome Res 2007 Sep 31;17(9):1266-77. Epub 2007 Jul 31.

Human Medical Genetics Program, University of Colorado at Denver and Health Sciences Center, Aurora, Colorado 80045, USA

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http://dx.doi.org/10.1101/gr.6557307DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1950895PMC
September 2007

A perspective on DNA microarrays in pathology research and practice.

Am J Pathol 2007 Aug 28;171(2):375-85. Epub 2007 Jun 28.

Department of Pathology, Stanford University School of Medicine, CCSR-3245A, 269 Campus Dr., Stanford, CA 94305-5176, USA.

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http://dx.doi.org/10.2353/ajpath.2007.070342DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1934527PMC
August 2007

A variant TMPRSS2 isoform and ERG fusion product in prostate cancer with implications for molecular diagnosis.

Mod Pathol 2007 Apr 2;20(4):467-73. Epub 2007 Mar 2.

Department of Pathology, Stanford University, Stanford, CA 94305-5176, USA.

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http://dx.doi.org/10.1038/modpathol.3800759DOI Listing
April 2007

Evolutionary and biomedical insights from the rhesus macaque genome.

Authors:
Richard A Gibbs Jeffrey Rogers Michael G Katze Roger Bumgarner George M Weinstock Elaine R Mardis Karin A Remington Robert L Strausberg J Craig Venter Richard K Wilson Mark A Batzer Carlos D Bustamante Evan E Eichler Matthew W Hahn Ross C Hardison Kateryna D Makova Webb Miller Aleksandar Milosavljevic Robert E Palermo Adam Siepel James M Sikela Tony Attaway Stephanie Bell Kelly E Bernard Christian J Buhay Mimi N Chandrabose Marvin Dao Clay Davis Kimberly D Delehaunty Yan Ding Huyen H Dinh Shannon Dugan-Rocha Lucinda A Fulton Ramatu Ayiesha Gabisi Toni T Garner Jennifer Godfrey Alicia C Hawes Judith Hernandez Sandra Hines Michael Holder Jennifer Hume Shalini N Jhangiani Vandita Joshi Ziad Mohid Khan Ewen F Kirkness Andrew Cree R Gerald Fowler Sandra Lee Lora R Lewis Zhangwan Li Yih-Shin Liu Stephanie M Moore Donna Muzny Lynne V Nazareth Dinh Ngoc Ngo Geoffrey O Okwuonu Grace Pai David Parker Heidie A Paul Cynthia Pfannkoch Craig S Pohl Yu-Hui Rogers San Juana Ruiz Aniko Sabo Jireh Santibanez Brian W Schneider Scott M Smith Erica Sodergren Amanda F Svatek Teresa R Utterback Selina Vattathil Wesley Warren Courtney Sherell White Asif T Chinwalla Yucheng Feng Aaron L Halpern Ladeana W Hillier Xiaoqiu Huang Pat Minx Joanne O Nelson Kymberlie H Pepin Xiang Qin Granger G Sutton Eli Venter Brian P Walenz John W Wallis Kim C Worley Shiaw-Pyng Yang Steven M Jones Marco A Marra Mariano Rocchi Jacqueline E Schein Robert Baertsch Laura Clarke Miklós Csürös Jarret Glasscock R Alan Harris Paul Havlak Andrew R Jackson Huaiyang Jiang Yue Liu David N Messina Yufeng Shen Henry Xing-Zhi Song Todd Wylie Lan Zhang Ewan Birney Kyudong Han Miriam K Konkel Jungnam Lee Arian F A Smit Brygg Ullmer Hui Wang Jinchuan Xing Richard Burhans Ze Cheng John E Karro Jian Ma Brian Raney Xinwei She Michael J Cox Jeffery P Demuth Laura J Dumas Sang-Gook Han Janet Hopkins Anis Karimpour-Fard Young H Kim Jonathan R Pollack Tomas Vinar Charles Addo-Quaye Jeremiah Degenhardt Alexandra Denby Melissa J Hubisz Amit Indap Carolin Kosiol Bruce T Lahn Heather A Lawson Alison Marklein Rasmus Nielsen Eric J Vallender Andrew G Clark Betsy Ferguson Ryan D Hernandez Kashif Hirani Hildegard Kehrer-Sawatzki Jessica Kolb Shobha Patil Ling-Ling Pu Yanru Ren David Glenn Smith David A Wheeler Ian Schenck Edward V Ball Rui Chen David N Cooper Belinda Giardine Fan Hsu W James Kent Arthur Lesk David L Nelson William E O'brien Kay Prüfer Peter D Stenson James C Wallace Hui Ke Xiao-Ming Liu Peng Wang Andy Peng Xiang Fan Yang Galt P Barber David Haussler Donna Karolchik Andy D Kern Robert M Kuhn Kayla E Smith Ann S Zwieg

Science 2007 Apr;316(5822):222-34

Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX 77030, USA.

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http://dx.doi.org/10.1126/science.1139247DOI Listing
April 2007

Target discovery and validation in pancreatic cancer.

Methods Mol Biol 2007 ;360:57-89

Department of Pathology, Sol Goldman Pancreatic Cancer Research Center, Johns Hopkins University School of Medicine, Baltimore, MD, USA.

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http://dx.doi.org/10.1385/1-59745-165-7:57DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2662995PMC
February 2007

Application of genomic technologies to human prostate cancer.

OMICS 2006 ;10(3):261-75

Department of Urology, Stanford University of Medicine, Stanford, California 94305-5118, USA.

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http://dx.doi.org/10.1089/omi.2006.10.261DOI Listing
December 2006

Chromosome instability leaves its mark.

Nat Genet 2006 Sep;38(9):973-4

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http://dx.doi.org/10.1038/ng0906-973DOI Listing
September 2006

RNA interference-based functional dissection of the 17q12 amplicon in breast cancer reveals contribution of coamplified genes.

Genes Chromosomes Cancer 2006 Aug;45(8):761-9

Department of Pathology, Stanford University, Stanford, California 94305, USA.

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http://dx.doi.org/10.1002/gcc.20339DOI Listing
August 2006

A DNA microarray survey of gene expression in normal human tissues.

Genome Biol 2005 14;6(3):R22. Epub 2005 Feb 14.

Department of Pathology, Stanford University School of Medicine, 269 Campus Drive, CCSR 3245A, Stanford, CA 94305-5176, USA.

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http://dx.doi.org/10.1186/gb-2005-6-3-r22DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1088941PMC
March 2006

A gene expression signature of genetic instability in colon cancer.

Cancer Res 2005 Oct;65(20):9200-5

Department of Pathology, Stanford University, Stanford, CA 94305-5176, USA.

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http://dx.doi.org/10.1158/0008-5472.CAN-04-4163DOI Listing
October 2005

Comparative genomic hybridization on mouse cDNA microarrays and its application to a murine lymphoma model.

Oncogene 2005 Sep;24(40):6101-7

Department of Pathology, Stanford University, Stanford, CA 94305-5176, USA.

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http://dx.doi.org/10.1038/sj.onc.1208751DOI Listing
September 2005

The retinoic acid synthesis gene ALDH1a2 is a candidate tumor suppressor in prostate cancer.

Cancer Res 2005 Sep;65(18):8118-24

Department of Pathology, Stanford University, Stanford, California 94305-5176, USA.

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http://dx.doi.org/10.1158/0008-5472.CAN-04-4562DOI Listing
September 2005

Genomics in myeloid leukemias: an array of possibilities.

Rev Clin Exp Hematol 2005 Jun 1;9(1):E2. Epub 2005 Jun 1.

Department of Internal Medicine III, University of Ulm, Germany.

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June 2005

Genome-wide characterization of gene expression variations and DNA copy number changes in prostate cancer cell lines.

Prostate 2005 May;63(2):187-97

Department of Urology, Stanford University School of Medicine, Stanford, California, USA.

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http://dx.doi.org/10.1002/pros.20158DOI Listing
May 2005

High-resolution array-based comparative genomic hybridization for distinguishing paraffin-embedded Spitz nevi and melanomas.

Diagn Mol Pathol 2004 Mar;13(1):22-5

Department of Pathology, Stanford University School of Medicine, Stanford, CA 94305, USA.

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March 2004

Parallel analysis of gene copy number and expression using cDNA microarrays.

Methods Mol Biol 2003 ;224:89-97

Department of Pathology, Stanford University School of Medicine, Palo Alto, CA, USA.

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http://dx.doi.org/10.1385/1-59259-364-X:89DOI Listing
January 2004

The diagnosis and management of pre-invasive breast disease: promise of new technologies in understanding pre-invasive breast lesions.

Breast Cancer Res 2003 9;5(6):320-8. Epub 2003 Oct 9.

Stanford University School of Medicine, Stanford, California, USA.

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http://dx.doi.org/10.1186/bcr655DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC314415PMC
December 2003

Gene expression patterns and gene copy number changes in dermatofibrosarcoma protuberans.

Am J Pathol 2003 Dec;163(6):2383-95

Departments of Pathology, Genetics, and Biochemistry, and Howard Hughes Medical Institute, Stanford University Medical Center, Stanford, California 94305, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1892373PMC
http://dx.doi.org/10.1016/S0002-9440(10)63593-6DOI Listing
December 2003

Gene expression profiling in prostate cancer cells with Akt activation reveals Fra-1 as an Akt-inducible gene.

Mol Cancer Res 2003 Apr;1(6):475-84

Department of Molecular Pharmacology, Stanford University and Department of Pathology, Stanford University School of Medicine, Stanford, CA.

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April 2003

Characterizing the physical genome.

Nat Genet 2002 Dec;32 Suppl:515-21

Department of Pathology, Stanford University School of Medicine, CCSR Building, Room 3245A, 269 Campus Drive, Stanford, California 94305-5176, USA.

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http://dx.doi.org/10.1038/ng1035DOI Listing
December 2002

Microarray analysis reveals a major direct role of DNA copy number alteration in the transcriptional program of human breast tumors.

Proc Natl Acad Sci U S A 2002 Oct 24;99(20):12963-8. Epub 2002 Sep 24.

Departments of Pathology, Genetics, Surgery, Health Research and Policy, and Biochemistry, and Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA.

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http://dx.doi.org/10.1073/pnas.162471999DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC130569PMC
October 2002

Physical mapping of genes in somatic cell radiation hybrids by comparative genomic hybridization to cDNA microarrays.

Genome Biol 2002 14;3(6):RESEARCH0026. Epub 2002 May 14.

Department of Vascular Biology, The Scripps Research Institute, 10550 N, Torrey Pines Road, La Jolla, CA 92037, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC116723PMC
http://dx.doi.org/10.1186/gb-2002-3-6-research0026DOI Listing
August 2002

A transcriptional response to Wnt protein in human embryonic carcinoma cells.

BMC Dev Biol 2002 Jul 2;2. Epub 2002 Jul 2.

Department of Developmental Biology, Howard Hughes Medical Institute, Stanford University, Stanford, CA 94305 USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC117803PMC
July 2002

Challenges in developing a molecular characterization of cancer.

Semin Oncol 2002 Jun;29(3):280-5

Department of Pathology, Stanford University School of Medicine, Stanford, CA 94305, USA.

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June 2002

Molecular characterisation of soft tissue tumours: a gene expression study.

Lancet 2002 Apr;359(9314):1301-7

Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, BC, Canada.

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http://dx.doi.org/10.1016/S0140-6736(02)08270-3DOI Listing
April 2002