Literature DB >> 26017449

Whole-genome characterization of chemoresistant ovarian cancer.

Ann-Marie Patch1, Elizabeth L Christie2, Dariush Etemadmoghadam3, Dale W Garsed2, Joshy George4, Sian Fereday2, Katia Nones1, Prue Cowin2, Kathryn Alsop2, Peter J Bailey5, Karin S Kassahn6, Felicity Newell7, Michael C J Quinn1, Stephen Kazakoff1, Kelly Quek7, Charlotte Wilhelm-Benartzi8, Ed Curry8, Huei San Leong2, Anne Hamilton9, Linda Mileshkin10, George Au-Yeung2, Catherine Kennedy11, Jillian Hung11, Yoke-Eng Chiew11, Paul Harnett12, Michael Friedlander13, Michael Quinn14, Jan Pyman14, Stephen Cordner15, Patricia O'Brien15, Jodie Leditschke15, Greg Young15, Kate Strachan15, Paul Waring16, Walid Azar2, Chris Mitchell2, Nadia Traficante2, Joy Hendley2, Heather Thorne2, Mark Shackleton10, David K Miller7, Gisela Mir Arnau2, Richard W Tothill10, Timothy P Holloway2, Timothy Semple2, Ivon Harliwong7, Craig Nourse7, Ehsan Nourbakhsh7, Suzanne Manning7, Senel Idrisoglu7, Timothy J C Bruxner7, Angelika N Christ7, Barsha Poudel7, Oliver Holmes1, Matthew Anderson7, Conrad Leonard1, Andrew Lonie17, Nathan Hall18, Scott Wood1, Darrin F Taylor7, Qinying Xu1, J Lynn Fink7, Nick Waddell7, Ronny Drapkin19, Euan Stronach8, Hani Gabra8, Robert Brown8, Andrea Jewell20, Shivashankar H Nagaraj7, Emma Markham7, Peter J Wilson7, Jason Ellul2, Orla McNally11, Maria A Doyle2, Ravikiran Vedururu2, Collin Stewart21, Ernst Lengyel20, John V Pearson1, Nicola Waddell1, Anna deFazio11, Sean M Grimmond5, David D L Bowtell22.   

Abstract

Patients with high-grade serous ovarian cancer (HGSC) have experienced little improvement in overall survival, and standard treatment has not advanced beyond platinum-based combination chemotherapy, during the past 30 years. To understand the drivers of clinical phenotypes better, here we use whole-genome sequencing of tumour and germline DNA samples from 92 patients with primary refractory, resistant, sensitive and matched acquired resistant disease. We show that gene breakage commonly inactivates the tumour suppressors RB1, NF1, RAD51B and PTEN in HGSC, and contributes to acquired chemotherapy resistance. CCNE1 amplification was common in primary resistant and refractory disease. We observed several molecular events associated with acquired resistance, including multiple independent reversions of germline BRCA1 or BRCA2 mutations in individual patients, loss of BRCA1 promoter methylation, an alteration in molecular subtype, and recurrent promoter fusion associated with overexpression of the drug efflux pump MDR1.

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Year:  2015        PMID: 26017449     DOI: 10.1038/nature14410

Source DB:  PubMed          Journal:  Nature        ISSN: 0028-0836            Impact factor:   49.962


  62 in total

1.  Secondary somatic mutations restoring BRCA1/2 predict chemotherapy resistance in hereditary ovarian carcinomas.

Authors:  Barbara Norquist; Kaitlyn A Wurz; Christopher C Pennil; Rochelle Garcia; Jenny Gross; Wataru Sakai; Beth Y Karlan; Toshiyasu Taniguchi; Elizabeth M Swisher
Journal:  J Clin Oncol       Date:  2011-06-27       Impact factor: 44.544

2.  Development of a functional assay for homologous recombination status in primary cultures of epithelial ovarian tumor and correlation with sensitivity to poly(ADP-ribose) polymerase inhibitors.

Authors:  Asima Mukhopadhyay; Ahmed Elattar; Aiste Cerbinskaite; Sarah J Wilkinson; Yvette Drew; Suzanne Kyle; Gerrit Los; Zdenek Hostomsky; Richard J Edmondson; Nicola J Curtin
Journal:  Clin Cancer Res       Date:  2010-04-06       Impact factor: 12.531

3.  Ploidy and large-scale genomic instability consistently identify basal-like breast carcinomas with BRCA1/2 inactivation.

Authors:  Tatiana Popova; Elodie Manié; Guillaume Rieunier; Virginie Caux-Moncoutier; Carole Tirapo; Thierry Dubois; Olivier Delattre; Brigitte Sigal-Zafrani; Marc Bollet; Michel Longy; Claude Houdayer; Xavier Sastre-Garau; Anne Vincent-Salomon; Dominique Stoppa-Lyonnet; Marc-Henri Stern
Journal:  Cancer Res       Date:  2012-08-29       Impact factor: 12.701

4.  Clonal evolution of high-grade serous ovarian carcinoma from primary to recurrent disease.

Authors:  Mauro Castellarin; Katy Milne; Thomas Zeng; Kane Tse; Michael Mayo; Yongjun Zhao; John R Webb; Peter H Watson; Brad H Nelson; Robert A Holt
Journal:  J Pathol       Date:  2012-11-29       Impact factor: 7.996

5.  Morphologic patterns associated with BRCA1 and BRCA2 genotype in ovarian carcinoma.

Authors:  Robert A Soslow; Guangming Han; Kay J Park; Karuna Garg; Narciso Olvera; David R Spriggs; Noah D Kauff; Douglas A Levine
Journal:  Mod Pathol       Date:  2011-12-23       Impact factor: 7.842

6.  Ovarian cancer development and metastasis.

Authors:  Ernst Lengyel
Journal:  Am J Pathol       Date:  2010-07-22       Impact factor: 4.307

7.  Frequency of BRCA1 dysfunction in ovarian cancer.

Authors:  John P Geisler; Melanie A Hatterman-Zogg; Jennifer A Rathe; Richard E Buller
Journal:  J Natl Cancer Inst       Date:  2002-01-02       Impact factor: 13.506

8.  Nonequivalent gene expression and copy number alterations in high-grade serous ovarian cancers with BRCA1 and BRCA2 mutations.

Authors:  Joshy George; Kathryn Alsop; Dariush Etemadmoghadam; Heather Hondow; Thomas Mikeska; Alexander Dobrovic; Anna deFazio; Gordon K Smyth; Douglas A Levine; Gillian Mitchell; David D Bowtell
Journal:  Clin Cancer Res       Date:  2013-04-30       Impact factor: 12.531

9.  Integrated genome-wide DNA copy number and expression analysis identifies distinct mechanisms of primary chemoresistance in ovarian carcinomas.

Authors:  Dariush Etemadmoghadam; Anna deFazio; Rameen Beroukhim; Craig Mermel; Joshy George; Gad Getz; Richard Tothill; Aikou Okamoto; Maria B Raeder; Paul Harnett; Stephen Lade; Lars A Akslen; Anna V Tinker; Bianca Locandro; Kathryn Alsop; Yoke-Eng Chiew; Nadia Traficante; Sian Fereday; Daryl Johnson; Stephen Fox; William Sellers; Mitsuyoshi Urashima; Helga B Salvesen; Matthew Meyerson; David Bowtell
Journal:  Clin Cancer Res       Date:  2009-02-03       Impact factor: 12.531

10.  RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome.

Authors:  Bo Li; Colin N Dewey
Journal:  BMC Bioinformatics       Date:  2011-08-04       Impact factor: 3.307

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  533 in total

1.  Long Noncoding RNAs CUPID1 and CUPID2 Mediate Breast Cancer Risk at 11q13 by Modulating the Response to DNA Damage.

Authors:  Joshua A Betts; Mahdi Moradi Marjaneh; Fares Al-Ejeh; Yi Chieh Lim; Wei Shi; Haran Sivakumaran; Romain Tropée; Ann-Marie Patch; Michael B Clark; Nenad Bartonicek; Adrian P Wiegmans; Kristine M Hillman; Susanne Kaufmann; Amanda L Bain; Brian S Gloss; Joanna Crawford; Stephen Kazakoff; Shivangi Wani; Shu W Wen; Bryan Day; Andreas Möller; Nicole Cloonan; John Pearson; Melissa A Brown; Timothy R Mercer; Nicola Waddell; Kum Kum Khanna; Eloise Dray; Marcel E Dinger; Stacey L Edwards; Juliet D French
Journal:  Am J Hum Genet       Date:  2017-08-03       Impact factor: 11.025

2.  Corrigendum: Whole-genome characterization of chemoresistant ovarian cancer.

Authors:  Ann-Marie Patch; Elizabeth L Christie; Dariush Etemadmoghadam; Dale W Garsed; Joshy George; Sian Fereday; Katia Nones; Prue Cowin; Kathryn Alsop; Peter J Bailey; Karin S Kassahn; Felicity Newell; Michael C J Quinn; Stephen Kazakoff; Kelly Quek; Charlotte Wilhelm-Benartzi; Ed Curry; Huei San Leong; Anne Hamilton; Linda Mileshkin; George Au-Yeung; Catherine Kennedy; Jillian Hung; Yoke-Eng Chiew; Paul Harnett; Michael Friedlander; Michael Quinn; Jan Pyman; Stephen Cordner; Patricia O'Brien; Jodie Leditschke; Greg Young; Kate Strachan; Paul Waring; Walid Azar; Chris Mitchell; Nadia Traficante; Joy Hendley; Heather Thorne; Mark Shackleton; David K Miller; Gisela Mir Arnau; Richard W Tothill; Timothy P Holloway; Timothy Semple; Ivon Harliwong; Craig Nourse; Ehsan Nourbakhsh; Suzanne Manning; Senel Idrisoglu; Timothy J C Bruxner; Angelika N Christ; Barsha Poudel; Oliver Holmes; Matthew Anderson; Conrad Leonard; Andrew Lonie; Nathan Hall; Scott Wood; Darrin F Taylor; Qinying Xu; J Lynn Fink; Nick Waddell; Ronny Drapkin; Euan Stronach; Hani Gabra; Robert Brown; Andrea Jewell; Shivashankar H Nagaraj; Emma Markham; Peter J Wilson; Jason Ellul; Orla McNally; Maria A Doyle; Ravikiran Vedururu; Collin Stewart; Ernst Lengyel; John V Pearson; Nicola Waddell; Anna deFazio; Sean M Grimmond; David D L Bowtell
Journal:  Nature       Date:  2015-10-21       Impact factor: 49.962

3.  The Role of Multidrug Resistance Efflux Pumps in Cancer: Revisiting a JNCI Publication Exploring Expression of the MDR1 (P-glycoprotein) Gene.

Authors:  Michael M Gottesman; Ira H Pastan
Journal:  J Natl Cancer Inst       Date:  2015-08-18       Impact factor: 13.506

Review 4.  It's Totally Tubular....Riding The New Wave of Ovarian Cancer Research.

Authors:  Ruth Perets; Ronny Drapkin
Journal:  Cancer Res       Date:  2015-12-15       Impact factor: 12.701

5.  Clinical Cancer Advances 2016: Annual Report on Progress Against Cancer From the American Society of Clinical Oncology.

Authors:  Don S Dizon; Lada Krilov; Ezra Cohen; Tara Gangadhar; Patricia A Ganz; Thomas A Hensing; Stephen Hunger; Smitha S Krishnamurthi; Andrew B Lassman; Merry Jennifer Markham; Erica Mayer; Michael Neuss; Sumanta Kumar Pal; Lisa C Richardson; Richard Schilsky; Gary K Schwartz; David R Spriggs; Miguel Angel Villalona-Calero; Gina Villani; Gregory Masters
Journal:  J Clin Oncol       Date:  2016-02-04       Impact factor: 44.544

Review 6.  DNA Damage and Repair Biomarkers of Immunotherapy Response.

Authors:  Kent W Mouw; Michael S Goldberg; Panagiotis A Konstantinopoulos; Alan D D'Andrea
Journal:  Cancer Discov       Date:  2017-06-19       Impact factor: 39.397

7.  Selective Targeting of Cyclin E1-Amplified High-Grade Serous Ovarian Cancer by Cyclin-Dependent Kinase 2 and AKT Inhibition.

Authors:  George Au-Yeung; Franziska Lang; Walid J Azar; Chris Mitchell; Kate E Jarman; Kurt Lackovic; Diar Aziz; Carleen Cullinane; Richard B Pearson; Linda Mileshkin; Danny Rischin; Alison M Karst; Ronny Drapkin; Dariush Etemadmoghadam; David D L Bowtell
Journal:  Clin Cancer Res       Date:  2016-09-23       Impact factor: 12.531

8.  Genomic consequences of aberrant DNA repair mechanisms stratify ovarian cancer histotypes.

Authors:  Yi Kan Wang; Ali Bashashati; Michael S Anglesio; Dawn R Cochrane; Diljot S Grewal; Gavin Ha; Andrew McPherson; Hugo M Horlings; Janine Senz; Leah M Prentice; Anthony N Karnezis; Daniel Lai; Mohamed R Aniba; Allen W Zhang; Karey Shumansky; Celia Siu; Adrian Wan; Melissa K McConechy; Hector Li-Chang; Alicia Tone; Diane Provencher; Manon de Ladurantaye; Hubert Fleury; Aikou Okamoto; Satoshi Yanagida; Nozomu Yanaihara; Misato Saito; Andrew J Mungall; Richard Moore; Marco A Marra; C Blake Gilks; Anne-Marie Mes-Masson; Jessica N McAlpine; Samuel Aparicio; David G Huntsman; Sohrab P Shah
Journal:  Nat Genet       Date:  2017-04-24       Impact factor: 38.330

9.  Reversion and non-reversion mechanisms of resistance to PARP inhibitor or platinum chemotherapy in BRCA1/2-mutant metastatic breast cancer.

Authors:  A G Waks; O Cohen; B Kochupurakkal; D Kim; C E Dunn; J Buendia Buendia; S Wander; K Helvie; M R Lloyd; L Marini; M E Hughes; S S Freeman; S P Ivy; J Geradts; S Isakoff; P LoRusso; V A Adalsteinsson; S M Tolaney; U Matulonis; I E Krop; A D D'Andrea; E P Winer; N U Lin; G I Shapiro; N Wagle
Journal:  Ann Oncol       Date:  2020-02-20       Impact factor: 32.976

10.  Single-Cell RNA Sequencing of Ovarian Cancer: Promises and Challenges.

Authors:  Shobhana Talukdar; Zenas Chang; Boris Winterhoff; Timothy K Starr
Journal:  Adv Exp Med Biol       Date:  2021       Impact factor: 2.622

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