Combined cDNA array comparative genomic hybridization and serial analysis of gene expression analysis of breast tumor progression

Cancer Research
Jun YaoKornelia Polyak

Abstract

To identify genetic changes involved in the progression of breast carcinoma, we did cDNA array comparative genomic hybridization (CGH) on a panel of breast tumors, including 10 ductal carcinoma in situ (DCIS), 18 invasive breast carcinomas, and two lymph node metastases. We identified 49 minimal commonly amplified regions (MCRs) that included known (1q, 8q24, 11q13, 17q21-q23, and 20q13) and several uncharacterized (12p13 and 16p13) regional copy number gains. With the exception of the 17q21 (ERBB2) amplicon, the overall frequency of copy number alterations was higher in invasive tumors than that in DCIS, with several of them present only in invasive cancer. Amplification of candidate loci was confirmed by quantitative PCR in breast carcinomas and cell lines. To identify putative targets of amplicons, we developed a method combining array CGH and serial analysis of gene expression (SAGE) data to correlate copy number and expression levels for each gene within MCRs. Using this approach, we were able to distinguish a few candidate targets from a set of coamplified genes. Analysis of the 12p13-p12 amplicon identified four putative targets: TEL/ETV6, H2AFJ, EPS8, and KRAS2. The amplification of all four candidates was confirmed by ...Continue Reading

References

May 23, 1995·Proceedings of the National Academy of Sciences of the United States of America·T R GolubD G Gilliland
Jul 1, 1995·Molecular and Cellular Biology·B MatoskovaP P Di Fiore
Oct 1, 1996·Leukemia & Lymphoma·I WlodarskaH van den Berghe
Feb 14, 1998·Nature Genetics·S R KnezevichP H Sorensen
Oct 30, 1998·Biochemical and Biophysical Research Communications·S MiyakisD A Spandidos
Sep 26, 2002·Proceedings of the National Academy of Sciences of the United States of America·Jonathan R PollackPatrick O Brown
Aug 14, 2003·Human Molecular Genetics·Donna G Albertson, Daniel Pinkel
Nov 7, 2003·Genes, Chromosomes & Cancer·Kati P PorkkaTapio Visakorpi
Dec 4, 2003·Cell·Luke Hughes-DaviesTony Kouzarides
Jan 30, 2004·Trends in Genetics : TIG·Kiran K MantripragadaJan P Dumanski
Mar 16, 2004·Science·Yardena SamuelsVictor E Velculescu
Apr 22, 2004·Genes, Chromosomes & Cancer·Nikita MakretsovDavid G Huntsman
Jun 17, 2004·Proceedings of the National Academy of Sciences of the United States of America·Andrew J AguirreLynda Chin
Jul 9, 2004·Genome Biology·Li CaiWing H Wong
Jul 16, 2004·Cancer Biology & Therapy·Kurtis E BachmanBen Ho Park
Jul 21, 2004·Cancer Cell·Minna AllinenKornelia Polyak
Aug 10, 2004·Nature Genetics·Koei ChinStephen J Lockett
Sep 10, 2004·Clinical Cancer Research : an Official Journal of the American Association for Cancer Research·Carmen RodriguezCharles Theillet
Oct 12, 2004·Biostatistics·Adam B OlshenMichael Wigler
Oct 19, 2004·Seminars in Oncology·Yosef YardenDavid Miles
Nov 3, 2004·Cancer Research·Ian G CampbellWayne A Phillips
Nov 24, 2004·Nature Cell Biology·Andrea DisanzaGiorgio Scita
May 12, 2005·Genes, Chromosomes & Cancer·Anne LetessierMax Chaffanet
Sep 20, 2005·Breast Cancer Research : BCR·Guojun WuDavid Sidransky

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Citations

Sep 26, 2012·Annals of Biomedical Engineering·Anirikh ChakrabartiJeffrey D Varner
Aug 1, 2013·Apoptosis : an International Journal on Programmed Cell Death·Kai Hung TiongChee-Onn Leong
Nov 5, 2011·Breast Cancer Research and Treatment·Clint E JohnsonIan G Campbell
Jan 27, 2009·Cancer Metastasis Reviews·Mahmut Yilmaz, Gerhard Christofori
Aug 16, 2008·The New England Journal of Medicine·Stefan Fröhling, Hartmut Döhner
Jul 1, 2008·Bioinformatics·Franck RapaportJean-Philippe Vert
Apr 17, 2007·Carcinogenesis·So Young Kim, William C Hahn
Nov 15, 2008·Carcinogenesis·Huixin WangW Andrew Yeudall
Oct 2, 2007·Current Opinion in Oncology·Isabelle Vanden BemptChristiane De Wolf-Peeters
Jul 15, 2011·Genome Research·Jamie GuenthoerPeggy L Porter
May 17, 2007·International Journal of Gynecological Cancer : Official Journal of the International Gynecological Cancer Society·Y-W ChoiW S Ahn
Nov 15, 2007·Cytogenetic and Genome Research·V Urquidi, S Goodison
Nov 3, 2007·The Journal of Clinical Investigation·Kornelia Polyak
Dec 7, 2006·BMC Cancer·Ruria NambaJeffrey P Gregg
Feb 19, 2008·Breast Cancer Research : BCR·Sharon Moulis, Dennis C Sgroi
Aug 7, 2012·Breast Cancer Research : BCR·Min JangSo Park
Jan 20, 2011·Journal of Clinical Oncology : Official Journal of the American Society of Clinical Oncology·Edith A PerezMonica M Reinholz
Jun 26, 2007·PLoS Computational Biology·Oscar M Rueda, Ramón Díaz-Uriarte
Aug 10, 2012·World Journal of Gastroenterology : WJG·Wael M Abdel-RahmanPäivi Peltomäki
Oct 11, 2013·Future Oncology·Yu-Hua LiJing-Wen Du
Oct 15, 2009·Annual Review of Pathology·Dennis C Sgroi
Sep 14, 2012·Molecular Biology Reports·Marcelo Dos SantosAdriana Madeira Álvares da Silva
Jul 8, 2010·Annual Review of Cell and Developmental Biology·Han-Yu ChuangTrey Ideker
Jun 1, 2014·International Journal of Molecular Sciences·Konstantina A SvokosSteven A Toms
Apr 23, 2011·Critical Reviews in Oncology/hematology·Sebastiano CavallaroFrancesco Basile
Feb 27, 2010·Experimental Cell Research·Thilo WelschJan Schmidt
Mar 6, 2009·The Lancet Oncology·Monica M ReinholzRobert B Jenkins
Jan 27, 2009·Cancer Genetics and Cytogenetics·S D SelcukluA E Erson

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