Literature DB >> 21163964

The genetic landscape of the childhood cancer medulloblastoma.

D Williams Parsons1, Meng Li, Xiaosong Zhang, Siân Jones, Rebecca J Leary, Jimmy Cheng-Ho Lin, Simina M Boca, Hannah Carter, Josue Samayoa, Chetan Bettegowda, Gary L Gallia, George I Jallo, Zev A Binder, Yuri Nikolsky, James Hartigan, Doug R Smith, Daniela S Gerhard, Daniel W Fults, Scott VandenBerg, Mitchel S Berger, Suely Kazue Nagahashi Marie, Sueli Mieko Oba Shinjo, Carlos Clara, Peter C Phillips, Jane E Minturn, Jaclyn A Biegel, Alexander R Judkins, Adam C Resnick, Phillip B Storm, Tom Curran, Yiping He, B Ahmed Rasheed, Henry S Friedman, Stephen T Keir, Roger McLendon, Paul A Northcott, Michael D Taylor, Peter C Burger, Gregory J Riggins, Rachel Karchin, Giovanni Parmigiani, Darell D Bigner, Hai Yan, Nick Papadopoulos, Bert Vogelstein, Kenneth W Kinzler, Victor E Velculescu.   

Abstract

Medulloblastoma (MB) is the most common malignant brain tumor of children. To identify the genetic alterations in this tumor type, we searched for copy number alterations using high-density microarrays and sequenced all known protein-coding genes and microRNA genes using Sanger sequencing in a set of 22 MBs. We found that, on average, each tumor had 11 gene alterations, fewer by a factor of 5 to 10 than in the adult solid tumors that have been sequenced to date. In addition to alterations in the Hedgehog and Wnt pathways, our analysis led to the discovery of genes not previously known to be altered in MBs. Most notably, inactivating mutations of the histone-lysine N-methyltransferase genes MLL2 or MLL3 were identified in 16% of MB patients. These results demonstrate key differences between the genetic landscapes of adult and childhood cancers, highlight dysregulation of developmental pathways as an important mechanism underlying MBs, and identify a role for a specific type of histone methylation in human tumorigenesis.

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Year:  2010        PMID: 21163964      PMCID: PMC3110744          DOI: 10.1126/science.1198056

Source DB:  PubMed          Journal:  Science        ISSN: 0036-8075            Impact factor:   47.728


  42 in total

1.  The mutation spectrum revealed by paired genome sequences from a lung cancer patient.

Authors:  William Lee; Zhaoshi Jiang; Jinfeng Liu; Peter M Haverty; Yinghui Guan; Jeremy Stinson; Peng Yue; Yan Zhang; Krishna P Pant; Deepali Bhatt; Connie Ha; Stephanie Johnson; Michael I Kennemer; Sankar Mohan; Igor Nazarenko; Colin Watanabe; Andrew B Sparks; David S Shames; Robert Gentleman; Frederic J de Sauvage; Howard Stern; Ajay Pandita; Dennis G Ballinger; Radoje Drmanac; Zora Modrusan; Somasekar Seshagiri; Zemin Zhang
Journal:  Nature       Date:  2010-05-27       Impact factor: 49.962

2.  A tumor suppressive coactivator complex of p53 containing ASC-2 and histone H3-lysine-4 methyltransferase MLL3 or its paralogue MLL4.

Authors:  Jeongkyung Lee; Dae-Hwan Kim; Seunghee Lee; Qi-Heng Yang; Dong Kee Lee; Soo-Kyung Lee; Robert G Roeder; Jae W Lee
Journal:  Proc Natl Acad Sci U S A       Date:  2009-05-11       Impact factor: 11.205

3.  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

4.  Frequent mutations of chromatin remodeling gene ARID1A in ovarian clear cell carcinoma.

Authors:  Siân Jones; Tian-Li Wang; Ie-Ming Shih; Tsui-Lien Mao; Kentaro Nakayama; Richard Roden; Ruth Glas; Dennis Slamon; Luis A Diaz; Bert Vogelstein; Kenneth W Kinzler; Victor E Velculescu; Nickolas Papadopoulos
Journal:  Science       Date:  2010-09-08       Impact factor: 47.728

5.  Integrated analysis of homozygous deletions, focal amplifications, and sequence alterations in breast and colorectal cancers.

Authors:  Rebecca J Leary; Jimmy C Lin; Jordan Cummins; Simina Boca; Laura D Wood; D Williams Parsons; Siân Jones; Tobias Sjöblom; Ben-Ho Park; Ramon Parsons; Joseph Willis; Dawn Dawson; James K V Willson; Tatiana Nikolskaya; Yuri Nikolsky; Levy Kopelovich; Nick Papadopoulos; Len A Pennacchio; Tian-Li Wang; Sanford D Markowitz; Giovanni Parmigiani; Kenneth W Kinzler; Bert Vogelstein; Victor E Velculescu
Journal:  Proc Natl Acad Sci U S A       Date:  2008-10-13       Impact factor: 11.205

6.  Recurring mutations found by sequencing an acute myeloid leukemia genome.

Authors:  Elaine R Mardis; Li Ding; David J Dooling; David E Larson; Michael D McLellan; Ken Chen; Daniel C Koboldt; Robert S Fulton; Kim D Delehaunty; Sean D McGrath; Lucinda A Fulton; Devin P Locke; Vincent J Magrini; Rachel M Abbott; Tammi L Vickery; Jerry S Reed; Jody S Robinson; Todd Wylie; Scott M Smith; Lynn Carmichael; James M Eldred; Christopher C Harris; Jason Walker; Joshua B Peck; Feiyu Du; Adam F Dukes; Gabriel E Sanderson; Anthony M Brummett; Eric Clark; Joshua F McMichael; Rick J Meyer; Jonathan K Schindler; Craig S Pohl; John W Wallis; Xiaoqi Shi; Ling Lin; Heather Schmidt; Yuzhu Tang; Carrie Haipek; Madeline E Wiechert; Jolynda V Ivy; Joelle Kalicki; Glendoria Elliott; Rhonda E Ries; Jacqueline E Payton; Peter Westervelt; Michael H Tomasson; Mark A Watson; Jack Baty; Sharon Heath; William D Shannon; Rakesh Nagarajan; Daniel C Link; Matthew J Walter; Timothy A Graubert; John F DiPersio; Richard K Wilson; Timothy J Ley
Journal:  N Engl J Med       Date:  2009-08-05       Impact factor: 91.245

7.  The APC tumor suppressor counteracts beta-catenin activation and H3K4 methylation at Wnt target genes.

Authors:  Jose Sierra; Tomonori Yoshida; Claudio A Joazeiro; Katherine A Jones
Journal:  Genes Dev       Date:  2006-03-01       Impact factor: 11.361

Review 8.  Genomics of medulloblastoma: from Giemsa-banding to next-generation sequencing in 20 years.

Authors:  Paul A Northcott; James T Rutka; Michael D Taylor
Journal:  Neurosurg Focus       Date:  2010-01       Impact factor: 4.047

9.  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

10.  DNA sequencing of a cytogenetically normal acute myeloid leukaemia genome.

Authors:  Timothy J Ley; Elaine R Mardis; Li Ding; Bob Fulton; Michael D McLellan; Ken Chen; David Dooling; Brian H Dunford-Shore; Sean McGrath; Matthew Hickenbotham; Lisa Cook; Rachel Abbott; David E Larson; Dan C Koboldt; Craig Pohl; Scott Smith; Amy Hawkins; Scott Abbott; Devin Locke; Ladeana W Hillier; Tracie Miner; Lucinda Fulton; Vincent Magrini; Todd Wylie; Jarret Glasscock; Joshua Conyers; Nathan Sander; Xiaoqi Shi; John R Osborne; Patrick Minx; David Gordon; Asif Chinwalla; Yu Zhao; Rhonda E Ries; Jacqueline E Payton; Peter Westervelt; Michael H Tomasson; Mark Watson; Jack Baty; Jennifer Ivanovich; Sharon Heath; William D Shannon; Rakesh Nagarajan; Matthew J Walter; Daniel C Link; Timothy A Graubert; John F DiPersio; Richard K Wilson
Journal:  Nature       Date:  2008-11-06       Impact factor: 49.962

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  386 in total

Review 1.  The COMPASS family of histone H3K4 methylases: mechanisms of regulation in development and disease pathogenesis.

Authors:  Ali Shilatifard
Journal:  Annu Rev Biochem       Date:  2012       Impact factor: 23.643

Review 2.  Noncoding RNAs involved in mammary gland development and tumorigenesis: there's a long way to go.

Authors:  Amy N Shore; Jason I Herschkowitz; Jeffrey M Rosen
Journal:  J Mammary Gland Biol Neoplasia       Date:  2012-03-09       Impact factor: 2.673

Review 3.  Delving into somatic variation in sporadic melanoma.

Authors:  Vijay Walia; Euphemia W Mu; Jimmy C Lin; Yardena Samuels
Journal:  Pigment Cell Melanoma Res       Date:  2012-02-13       Impact factor: 4.693

Review 4.  Epigenetic protein families: a new frontier for drug discovery.

Authors:  Cheryl H Arrowsmith; Chas Bountra; Paul V Fish; Kevin Lee; Matthieu Schapira
Journal:  Nat Rev Drug Discov       Date:  2012-04-13       Impact factor: 84.694

5.  Copy number variation detection in whole-genome sequencing data using the Bayesian information criterion.

Authors:  Ruibin Xi; Angela G Hadjipanayis; Lovelace J Luquette; Tae-Min Kim; Eunjung Lee; Jianhua Zhang; Mark D Johnson; Donna M Muzny; David A Wheeler; Richard A Gibbs; Raju Kucherlapati; Peter J Park
Journal:  Proc Natl Acad Sci U S A       Date:  2011-11-07       Impact factor: 11.205

Review 6.  Practicing pathology in the era of big data and personalized medicine.

Authors:  Jiang Gu; Clive R Taylor
Journal:  Appl Immunohistochem Mol Morphol       Date:  2014-01

7.  APOBEC3B is an enzymatic source of mutation in breast cancer.

Authors:  Michael B Burns; Lela Lackey; Michael A Carpenter; Anurag Rathore; Allison M Land; Brandon Leonard; Eric W Refsland; Delshanee Kotandeniya; Natalia Tretyakova; Jason B Nikas; Douglas Yee; Nuri A Temiz; Duncan E Donohue; Rebecca M McDougle; William L Brown; Emily K Law; Reuben S Harris
Journal:  Nature       Date:  2013-02-06       Impact factor: 49.962

Review 8.  Molecular pathology of prostate cancer revealed by next-generation sequencing: opportunities for genome-based personalized therapy.

Authors:  Jiaoti Huang; Jason K Wang; Yin Sun
Journal:  Curr Opin Urol       Date:  2013-05       Impact factor: 2.309

9.  Functional epigenetics approach identifies BRM/SMARCA2 as a critical synthetic lethal target in BRG1-deficient cancers.

Authors:  Gregory R Hoffman; Rami Rahal; Frank Buxton; Kay Xiang; Gregory McAllister; Elizabeth Frias; Linda Bagdasarian; Janina Huber; Alicia Lindeman; Dongshu Chen; Rodrigo Romero; Nadire Ramadan; Tanushree Phadke; Kristy Haas; Mariela Jaskelioff; Boris G Wilson; Matthew J Meyer; Veronica Saenz-Vash; Huili Zhai; Vic E Myer; Jeffery A Porter; Nicholas Keen; Margaret E McLaughlin; Craig Mickanin; Charles W M Roberts; Frank Stegmeier; Zainab Jagani
Journal:  Proc Natl Acad Sci U S A       Date:  2014-02-11       Impact factor: 11.205

Review 10.  Molecular markers in pediatric neuro-oncology.

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

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