Literature DB >> 22832581

Subgroup-specific structural variation across 1,000 medulloblastoma genomes.

Paul A Northcott1, David J H Shih, John Peacock, Livia Garzia, A Sorana Morrissy, Thomas Zichner, Adrian M Stütz, Andrey Korshunov, Jüri Reimand, Steven E Schumacher, Rameen Beroukhim, David W Ellison, Christian R Marshall, Anath C Lionel, Stephen Mack, Adrian Dubuc, Yuan Yao, Vijay Ramaswamy, Betty Luu, Adi Rolider, Florence M G Cavalli, Xin Wang, Marc Remke, Xiaochong Wu, Readman Y B Chiu, Andy Chu, Eric Chuah, Richard D Corbett, Gemma R Hoad, Shaun D Jackman, Yisu Li, Allan Lo, Karen L Mungall, Ka Ming Nip, Jenny Q Qian, Anthony G J Raymond, Nina T Thiessen, Richard J Varhol, Inanc Birol, Richard A Moore, Andrew J Mungall, Robert Holt, Daisuke Kawauchi, Martine F Roussel, Marcel Kool, David T W Jones, Hendrick Witt, Africa Fernandez-L, Anna M Kenney, Robert J Wechsler-Reya, Peter Dirks, Tzvi Aviv, Wieslawa A Grajkowska, Marta Perek-Polnik, Christine C Haberler, Olivier Delattre, Stéphanie S Reynaud, François F Doz, Sarah S Pernet-Fattet, Byung-Kyu Cho, Seung-Ki Kim, Kyu-Chang Wang, Wolfram Scheurlen, Charles G Eberhart, Michelle Fèvre-Montange, Anne Jouvet, Ian F Pollack, Xing Fan, Karin M Muraszko, G Yancey Gillespie, Concezio Di Rocco, Luca Massimi, Erna M C Michiels, Nanne K Kloosterhof, Pim J French, Johan M Kros, James M Olson, Richard G Ellenbogen, Karel Zitterbart, Leos Kren, Reid C Thompson, Michael K Cooper, Boleslaw Lach, Roger E McLendon, Darell D Bigner, Adam Fontebasso, Steffen Albrecht, Nada Jabado, Janet C Lindsey, Simon Bailey, Nalin Gupta, William A Weiss, László Bognár, Almos Klekner, Timothy E Van Meter, Toshihiro Kumabe, Teiji Tominaga, Samer K Elbabaa, Jeffrey R Leonard, Joshua B Rubin, Linda M Liau, Erwin G Van Meir, Maryam Fouladi, Hideo Nakamura, Giuseppe Cinalli, Miklós Garami, Peter Hauser, Ali G Saad, Achille Iolascon, Shin Jung, Carlos G Carlotti, Rajeev Vibhakar, Young Shin Ra, Shenandoah Robinson, Massimo Zollo, Claudia C Faria, Jennifer A Chan, Michael L Levy, Poul H B Sorensen, Matthew Meyerson, Scott L Pomeroy, Yoon-Jae Cho, Gary D Bader, Uri Tabori, Cynthia E Hawkins, Eric Bouffet, Stephen W Scherer, James T Rutka, David Malkin, Steven C Clifford, Steven J M Jones, Jan O Korbel, Stefan M Pfister, Marco A Marra, Michael D Taylor.   

Abstract

Medulloblastoma, the most common malignant paediatric brain tumour, is currently treated with nonspecific cytotoxic therapies including surgery, whole-brain radiation, and aggressive chemotherapy. As medulloblastoma exhibits marked intertumoural heterogeneity, with at least four distinct molecular variants, previous attempts to identify targets for therapy have been underpowered because of small samples sizes. Here we report somatic copy number aberrations (SCNAs) in 1,087 unique medulloblastomas. SCNAs are common in medulloblastoma, and are predominantly subgroup-enriched. The most common region of focal copy number gain is a tandem duplication of SNCAIP, a gene associated with Parkinson's disease, which is exquisitely restricted to Group 4α. Recurrent translocations of PVT1, including PVT1-MYC and PVT1-NDRG1, that arise through chromothripsis are restricted to Group 3. Numerous targetable SCNAs, including recurrent events targeting TGF-β signalling in Group 3, and NF-κB signalling in Group 4, suggest future avenues for rational, targeted therapy.

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Year:  2012        PMID: 22832581      PMCID: PMC3683624          DOI: 10.1038/nature11327

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


  40 in total

1.  Risk-adapted craniospinal radiotherapy followed by high-dose chemotherapy and stem-cell rescue in children with newly diagnosed medulloblastoma (St Jude Medulloblastoma-96): long-term results from a prospective, multicentre trial.

Authors:  Amar Gajjar; Murali Chintagumpala; David Ashley; Stewart Kellie; Larry E Kun; Thomas E Merchant; Shaio Woo; Greg Wheeler; Valerie Ahern; Matthew J Krasin; Maryam Fouladi; Alberto Broniscer; Robert Krance; Gregory A Hale; Clinton F Stewart; Robert Dauser; Robert A Sanford; Christine Fuller; Ching Lau; James M Boyett; Dana Wallace; Richard J Gilbertson
Journal:  Lancet Oncol       Date:  2006-10       Impact factor: 41.316

2.  OTX2 is critical for the maintenance and progression of Shh-independent medulloblastomas.

Authors:  David C Adamson; Qun Shi; Matthew Wortham; Paul A Northcott; Chunhui Di; Christopher G Duncan; Jianjun Li; Roger E McLendon; Darell D Bigner; Michael D Taylor; Hai Yan
Journal:  Cancer Res       Date:  2009-12-22       Impact factor: 12.701

3.  Somatic mutations of the Parkinson's disease-associated gene PARK2 in glioblastoma and other human malignancies.

Authors:  Selvaraju Veeriah; Barry S Taylor; Shasha Meng; Fang Fang; Emrullah Yilmaz; Igor Vivanco; Manickam Janakiraman; Nikolaus Schultz; Aphrothiti J Hanrahan; William Pao; Marc Ladanyi; Chris Sander; Adriana Heguy; Eric C Holland; Philip B Paty; Paul S Mischel; Linda Liau; Timothy F Cloughesy; Ingo K Mellinghoff; David B Solit; Timothy A Chan
Journal:  Nat Genet       Date:  2009-11-29       Impact factor: 38.330

4.  Multiple recurrent genetic events converge on control of histone lysine methylation in medulloblastoma.

Authors:  Paul A Northcott; Yukiko Nakahara; Xiaochong Wu; Lars Feuk; David W Ellison; Sid Croul; Stephen Mack; Paul N Kongkham; John Peacock; Adrian Dubuc; Young-Shin Ra; Karen Zilberberg; Jessica McLeod; Stephen W Scherer; J Sunil Rao; Charles G Eberhart; Wiesia Grajkowska; Yancey Gillespie; Boleslaw Lach; Richard Grundy; Ian F Pollack; Ronald L Hamilton; Timothy Van Meter; Carlos G Carlotti; Frederick Boop; Darrell Bigner; Richard J Gilbertson; James T Rutka; Michael D Taylor
Journal:  Nat Genet       Date:  2009-03-08       Impact factor: 38.330

5.  Synphilin-1 exhibits trophic and protective effects against Rotenone toxicity.

Authors:  X Li; Z Liu; K Tamashiro; B Shi; D D Rudnicki; C A Ross; T H Moran; W W Smith
Journal:  Neuroscience       Date:  2010-01-20       Impact factor: 3.590

6.  Smad2/3 activities are required for induction and patterning of the neuroectoderm in zebrafish.

Authors:  Shunji Jia; Di Wu; Cencan Xing; Anming Meng
Journal:  Dev Biol       Date:  2009-07-04       Impact factor: 3.582

7.  The PVT-1 oncogene is a Myc protein target that is overexpressed in transformed cells.

Authors:  Letizia Carramusa; Flavia Contino; Arianna Ferro; Luigi Minafra; Giovanni Perconti; Agata Giallongo; Salvatore Feo
Journal:  J Cell Physiol       Date:  2007-11       Impact factor: 6.384

8.  Treatment of medulloblastoma with hedgehog pathway inhibitor GDC-0449.

Authors:  Charles M Rudin; Christine L Hann; John Laterra; Robert L Yauch; Christopher A Callahan; Ling Fu; Thomas Holcomb; Jeremy Stinson; Stephen E Gould; Barbara Coleman; Patricia M LoRusso; Daniel D Von Hoff; Frederic J de Sauvage; Jennifer A Low
Journal:  N Engl J Med       Date:  2009-09-02       Impact factor: 91.245

9.  Smoothened mutation confers resistance to a Hedgehog pathway inhibitor in medulloblastoma.

Authors:  Robert L Yauch; Gerrit J P Dijkgraaf; Bruno Alicke; Thomas Januario; Christina P Ahn; Thomas Holcomb; Kanan Pujara; Jeremy Stinson; Christopher A Callahan; Tracy Tang; J Fernando Bazan; Zhengyan Kan; Somasekar Seshagiri; Christine L Hann; Stephen E Gould; Jennifer A Low; Charles M Rudin; Frederic J de Sauvage
Journal:  Science       Date:  2009-09-02       Impact factor: 47.728

10.  A small-cell lung cancer genome with complex signatures of tobacco exposure.

Authors:  Erin D Pleasance; Philip J Stephens; Sarah O'Meara; David J McBride; Alison Meynert; David Jones; Meng-Lay Lin; David Beare; King Wai Lau; Chris Greenman; Ignacio Varela; Serena Nik-Zainal; Helen R Davies; Gonzalo R Ordoñez; Laura J Mudie; Calli Latimer; Sarah Edkins; Lucy Stebbings; Lina Chen; Mingming Jia; Catherine Leroy; John Marshall; Andrew Menzies; Adam Butler; Jon W Teague; Jonathon Mangion; Yongming A Sun; Stephen F McLaughlin; Heather E Peckham; Eric F Tsung; Gina L Costa; Clarence C Lee; John D Minna; Adi Gazdar; Ewan Birney; Michael D Rhodes; Kevin J McKernan; Michael R Stratton; P Andrew Futreal; Peter J Campbell
Journal:  Nature       Date:  2009-12-16       Impact factor: 49.962

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  363 in total

Review 1.  Sonic hedgehog patterning during cerebellar development.

Authors:  Annarita De Luca; Valentina Cerrato; Elisa Fucà; Elena Parmigiani; Annalisa Buffo; Ketty Leto
Journal:  Cell Mol Life Sci       Date:  2015-10-24       Impact factor: 9.261

Review 2.  An epigenetic gateway to brain tumor cell identity.

Authors:  Stephen C Mack; Christopher G Hubert; Tyler E Miller; Michael D Taylor; Jeremy N Rich
Journal:  Nat Neurosci       Date:  2016-01       Impact factor: 24.884

Review 3.  Genetic and molecular alterations across medulloblastoma subgroups.

Authors:  Patryk Skowron; Vijay Ramaswamy; Michael D Taylor
Journal:  J Mol Med (Berl)       Date:  2015-09-09       Impact factor: 4.599

4.  DDX3X Suppresses the Susceptibility of Hindbrain Lineages to Medulloblastoma.

Authors:  Deanna M Patmore; Amir Jassim; Erica Nathan; Reuben J Gilbertson; Daniel Tahan; Nadin Hoffmann; Yiai Tong; Kyle S Smith; Thirumala-Devi Kanneganti; Hiromichi Suzuki; Michael D Taylor; Paul Northcott; Richard J Gilbertson
Journal:  Dev Cell       Date:  2020-06-17       Impact factor: 12.270

5.  Molecular subgrouping of primary pineal parenchymal tumors reveals distinct subtypes correlated with clinical parameters and genetic alterations.

Authors:  Elke Pfaff; Christian Aichmüller; Martin Sill; Damian Stichel; Matija Snuderl; Matthias A Karajannis; Martin U Schuhmann; Jens Schittenhelm; Martin Hasselblatt; Christian Thomas; Andrey Korshunov; Marina Rhizova; Andrea Wittmann; Anna Kaufhold; Murat Iskar; Petra Ketteler; Dietmar Lohmann; Brent A Orr; David W Ellison; Katja von Hoff; Martin Mynarek; Stefan Rutkowski; Felix Sahm; Andreas von Deimling; Peter Lichter; Marcel Kool; Marc Zapatka; Stefan M Pfister; David T W Jones
Journal:  Acta Neuropathol       Date:  2019-11-25       Impact factor: 17.088

6.  Functional Enhancers Shape Extrachromosomal Oncogene Amplifications.

Authors:  Andrew R Morton; Nergiz Dogan-Artun; Zachary J Faber; Graham MacLeod; Cynthia F Bartels; Megan S Piazza; Kevin C Allan; Stephen C Mack; Xiuxing Wang; Ryan C Gimple; Qiulian Wu; Brian P Rubin; Shashirekha Shetty; Stephane Angers; Peter B Dirks; Richard C Sallari; Mathieu Lupien; Jeremy N Rich; Peter C Scacheri
Journal:  Cell       Date:  2019-11-21       Impact factor: 41.582

7.  Global Inhibition with Specific Activation: How p53 and MYC Redistribute the Transcriptome in the DNA Double-Strand Break Response.

Authors:  Joshua R Porter; Brian E Fisher; Laura Baranello; Julia C Liu; Diane M Kambach; Zuqin Nie; Woo Seuk Koh; Ji Luo; Jayne M Stommel; David Levens; Eric Batchelor
Journal:  Mol Cell       Date:  2017-08-31       Impact factor: 17.970

Review 8.  Molecular markers in pediatric neuro-oncology.

Authors:  Koichi Ichimura; Ryo Nishikawa; Masao Matsutani
Journal:  Neuro Oncol       Date:  2012-09       Impact factor: 12.300

9.  Targeting transcriptional addictions in small cell lung cancer with a covalent CDK7 inhibitor.

Authors:  Camilla L Christensen; Nicholas Kwiatkowski; Brian J Abraham; Julian Carretero; Fatima Al-Shahrour; Tinghu Zhang; Edmond Chipumuro; Grit S Herter-Sprie; Esra A Akbay; Abigail Altabef; Jianming Zhang; Takeshi Shimamura; Marzia Capelletti; Jakob B Reibel; Jillian D Cavanaugh; Peng Gao; Yan Liu; Signe R Michaelsen; Hans S Poulsen; Amir R Aref; David A Barbie; James E Bradner; Rani E George; Nathanael S Gray; Richard A Young; Kwok-Kin Wong
Journal:  Cancer Cell       Date:  2014-12-08       Impact factor: 31.743

10.  Epigenomic alterations define lethal CIMP-positive ependymomas of infancy.

Authors:  S C Mack; H Witt; R M Piro; L Gu; S Zuyderduyn; A M Stütz; X Wang; M Gallo; L Garzia; K Zayne; X Zhang; V Ramaswamy; N Jäger; D T W Jones; M Sill; T J Pugh; M Ryzhova; K M Wani; D J H Shih; R Head; M Remke; S D Bailey; T Zichner; C C Faria; M Barszczyk; S Stark; H Seker-Cin; S Hutter; P Johann; S Bender; V Hovestadt; T Tzaridis; A M Dubuc; P A Northcott; J Peacock; K C Bertrand; S Agnihotri; F M G Cavalli; I Clarke; K Nethery-Brokx; C L Creasy; S K Verma; J Koster; X Wu; Y Yao; T Milde; P Sin-Chan; J Zuccaro; L Lau; S Pereira; P Castelo-Branco; M Hirst; M A Marra; S S Roberts; D Fults; L Massimi; Y J Cho; T Van Meter; W Grajkowska; B Lach; A E Kulozik; A von Deimling; O Witt; S W Scherer; X Fan; K M Muraszko; M Kool; S L Pomeroy; N Gupta; J Phillips; A Huang; U Tabori; C Hawkins; D Malkin; P N Kongkham; W A Weiss; N Jabado; J T Rutka; E Bouffet; J O Korbel; M Lupien; K D Aldape; G D Bader; R Eils; P Lichter; P B Dirks; S M Pfister; A Korshunov; M D Taylor
Journal:  Nature       Date:  2014-02-19       Impact factor: 49.962

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