Literature DB >> 29489754

The landscape of genomic alterations across childhood cancers.

Susanne N Gröbner1,2,3, Barbara C Worst1,2,3,4, Joachim Weischenfeldt5,6, Ivo Buchhalter7, Kortine Kleinheinz7, Vasilisa A Rudneva5,8, Pascal D Johann1,2,3,4, Gnana Prakash Balasubramanian1,2,9, Maia Segura-Wang5, Sebastian Brabetz1,2,3, Sebastian Bender1,2, Barbara Hutter3,7,9, Dominik Sturm1,2,3,4, Elke Pfaff1,2,3,4, Daniel Hübschmann4,9,10, Gideon Zipprich7, Michael Heinold7,10, Jürgen Eils7, Christian Lawerenz7, Serap Erkek1,2,3,5, Sander Lambo1,2,3, Sebastian Waszak5, Claudia Blattmann3,11, Arndt Borkhardt3,12, Michaela Kuhlen3,12, Angelika Eggert3,13, Simone Fulda3,14, Manfred Gessler15, Jenny Wegert15, Roland Kappler3,16, Daniel Baumhoer17, Stefan Burdach3,18, Renate Kirschner-Schwabe3,13, Udo Kontny3,19, Andreas E Kulozik1,3,4, Dietmar Lohmann3,20, Simone Hettmer21, Cornelia Eckert3,13, Stefan Bielack11, Michaela Nathrath3,18,22, Charlotte Niemeyer3,21, Günther H Richter3,18, Johannes Schulte3,13, Reiner Siebert23, Frank Westermann3,24, Jan J Molenaar25, Gilles Vassal26, Hendrik Witt1,2,3,4, Birgit Burkhardt27, Christian P Kratz28, Olaf Witt1,3,4,29, Cornelis M van Tilburg1,3,30, Christof M Kramm31, Gudrun Fleischhack3,32, Uta Dirksen32, Stefan Rutkowski33, Michael Frühwald34, Katja von Hoff33, Stephan Wolf35, Thomas Klingebiel3,36, Ewa Koscielniak11, Pablo Landgraf37, Jan Koster38, Adam C Resnick39, Jinghui Zhang40, Yanling Liu40, Xin Zhou40, Angela J Waanders41, Danny A Zwijnenburg38, Pichai Raman39, Benedikt Brors3,7,8, Ursula D Weber3,42, Paul A Northcott2,3,8, Kristian W Pajtler1,2,3,4, Marcel Kool1,2,3, Rosario M Piro3,42,43,44, Jan O Korbel5, Matthias Schlesner7,45, Roland Eils7,10, David T W Jones1,2,3, Peter Lichter3,42, Lukas Chavez1,2,3, Marc Zapatka42,43, Stefan M Pfister1,2,3,4.   

Abstract

Pan-cancer analyses that examine commonalities and differences among various cancer types have emerged as a powerful way to obtain novel insights into cancer biology. Here we present a comprehensive analysis of genetic alterations in a pan-cancer cohort including 961 tumours from children, adolescents, and young adults, comprising 24 distinct molecular types of cancer. Using a standardized workflow, we identified marked differences in terms of mutation frequency and significantly mutated genes in comparison to previously analysed adult cancers. Genetic alterations in 149 putative cancer driver genes separate the tumours into two classes: small mutation and structural/copy-number variant (correlating with germline variants). Structural variants, hyperdiploidy, and chromothripsis are linked to TP53 mutation status and mutational signatures. Our data suggest that 7-8% of the children in this cohort carry an unambiguous predisposing germline variant and that nearly 50% of paediatric neoplasms harbour a potentially druggable event, which is highly relevant for the design of future clinical trials.

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Year:  2018        PMID: 29489754     DOI: 10.1038/nature25480

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


  95 in total

1.  Gene fusion with an ETS DNA-binding domain caused by chromosome translocation in human tumours.

Authors:  O Delattre; J Zucman; B Plougastel; C Desmaze; T Melot; M Peter; H Kovar; I Joubert; P de Jong; G Rouleau
Journal:  Nature       Date:  1992-09-10       Impact factor: 49.962

Review 2.  Acute lymphoblastic leukemia.

Authors:  Ching-Hon Pui; Mary V Relling; James R Downing
Journal:  N Engl J Med       Date:  2004-04-08       Impact factor: 91.245

3.  Deep Sequencing in Conjunction with Expression and Functional Analyses Reveals Activation of FGFR1 in Ewing Sarcoma.

Authors:  Konstantin Agelopoulos; Günther H S Richter; Eva Schmidt; Uta Dirksen; Kristina von Heyking; Benjamin Moser; Hans-Ulrich Klein; Udo Kontny; Martin Dugas; Kathrin Poos; Eberhard Korsching; Thorsten Buch; Matthias Weckesser; Isabell Schulze; Regina Besoke; Anika Witten; Monika Stoll; Gabriele Köhler; Wolfgang Hartmann; Eva Wardelmann; Claudia Rossig; Daniel Baumhoer; Heribert Jürgens; Stefan Burdach; Wolfgang E Berdel; Carsten Müller-Tidow
Journal:  Clin Cancer Res       Date:  2015-07-15       Impact factor: 12.531

4.  Enhancer hijacking activates GFI1 family oncogenes in medulloblastoma.

Authors:  Paul A Northcott; Catherine Lee; Thomas Zichner; Adrian M Stütz; Serap Erkek; Daisuke Kawauchi; David J H Shih; Volker Hovestadt; Marc Zapatka; Dominik Sturm; David T W Jones; Marcel Kool; Marc Remke; Florence M G Cavalli; Scott Zuyderduyn; Gary D Bader; Scott VandenBerg; Lourdes Adriana Esparza; Marina Ryzhova; Wei Wang; Andrea Wittmann; Sebastian Stark; Laura Sieber; Huriye Seker-Cin; Linda Linke; Fabian Kratochwil; Natalie Jäger; Ivo Buchhalter; Charles D Imbusch; Gideon Zipprich; Benjamin Raeder; Sabine Schmidt; Nicolle Diessl; Stephan Wolf; Stefan Wiemann; Benedikt Brors; Chris Lawerenz; Jürgen Eils; Hans-Jörg Warnatz; Thomas Risch; Marie-Laure Yaspo; Ursula D Weber; Cynthia C Bartholomae; Christof von Kalle; Eszter Turányi; Peter Hauser; Emma Sanden; Anna Darabi; Peter Siesjö; Jaroslav Sterba; Karel Zitterbart; David Sumerauer; Peter van Sluis; Rogier Versteeg; Richard Volckmann; Jan Koster; Martin U Schuhmann; Martin Ebinger; H Leighton Grimes; Giles W Robinson; Amar Gajjar; Martin Mynarek; Katja von Hoff; Stefan Rutkowski; Torsten Pietsch; Wolfram Scheurlen; Jörg Felsberg; Guido Reifenberger; Andreas E Kulozik; Andreas von Deimling; Olaf Witt; Roland Eils; Richard J Gilbertson; Andrey Korshunov; Michael D Taylor; Peter Lichter; Jan O Korbel; Robert J Wechsler-Reya; Stefan M Pfister
Journal:  Nature       Date:  2014-06-22       Impact factor: 49.962

5.  The landscape of somatic mutations in epigenetic regulators across 1,000 paediatric cancer genomes.

Authors:  Robert Huether; Li Dong; Xiang Chen; Gang Wu; Matthew Parker; Lei Wei; Jing Ma; Michael N Edmonson; Erin K Hedlund; Michael C Rusch; Sheila A Shurtleff; Heather L Mulder; Kristy Boggs; Bhavin Vadordaria; Jinjun Cheng; Donald Yergeau; Guangchun Song; Jared Becksfort; Gordon Lemmon; Catherine Weber; Zhongling Cai; Jinjun Dang; Michael Walsh; Amanda L Gedman; Zachary Faber; John Easton; Tanja Gruber; Richard W Kriwacki; Janet F Partridge; Li Ding; Richard K Wilson; Elaine R Mardis; Charles G Mullighan; Richard J Gilbertson; Suzanne J Baker; Gerard Zambetti; David W Ellison; Jinghui Zhang; James R Downing
Journal:  Nat Commun       Date:  2014-04-08       Impact factor: 14.919

6.  Genome sequencing of SHH medulloblastoma predicts genotype-related response to smoothened inhibition.

Authors:  Marcel Kool; David T W Jones; Natalie Jäger; Paul A Northcott; Trevor J Pugh; Volker Hovestadt; Rosario M Piro; L Adriana Esparza; Shirley L Markant; Marc Remke; Till Milde; Franck Bourdeaut; Marina Ryzhova; Dominik Sturm; Elke Pfaff; Sebastian Stark; Sonja Hutter; Huriye Seker-Cin; Pascal Johann; Sebastian Bender; Christin Schmidt; Tobias Rausch; David Shih; Jüri Reimand; Laura Sieber; Andrea Wittmann; Linda Linke; Hendrik Witt; Ursula D Weber; Marc Zapatka; Rainer König; Rameen Beroukhim; Guillaume Bergthold; Peter van Sluis; Richard Volckmann; Jan Koster; Rogier Versteeg; Sabine Schmidt; Stephan Wolf; Chris Lawerenz; Cynthia C Bartholomae; Christof von Kalle; Andreas Unterberg; Christel Herold-Mende; Silvia Hofer; Andreas E Kulozik; Andreas von Deimling; Wolfram Scheurlen; Jörg Felsberg; Guido Reifenberger; Martin Hasselblatt; John R Crawford; Gerald A Grant; Nada Jabado; Arie Perry; Cynthia Cowdrey; Sydney Croul; Gelareh Zadeh; Jan O Korbel; Francois Doz; Olivier Delattre; Gary D Bader; Martin G McCabe; V Peter Collins; Mark W Kieran; Yoon-Jae Cho; Scott L Pomeroy; Olaf Witt; Benedikt Brors; Michael D Taylor; Ulrich Schüller; Andrey Korshunov; Roland Eils; Robert J Wechsler-Reya; Peter Lichter; Stefan M Pfister
Journal:  Cancer Cell       Date:  2014-03-17       Impact factor: 31.743

7.  SUZ12 is required for both the histone methyltransferase activity and the silencing function of the EED-EZH2 complex.

Authors:  Ru Cao; Yi Zhang
Journal:  Mol Cell       Date:  2004-07-02       Impact factor: 17.970

8.  Radio-induced malignancies after breast cancer postoperative radiotherapy in patients with Li-Fraumeni syndrome.

Authors:  Steve Heymann; Suzette Delaloge; Arslane Rahal; Olivier Caron; Thierry Frebourg; Lise Barreau; Corinne Pachet; Marie-Christine Mathieu; Hugo Marsiglia; Céline Bourgier
Journal:  Radiat Oncol       Date:  2010-11-08       Impact factor: 3.481

9.  A global reference for human genetic variation.

Authors:  Adam Auton; Lisa D Brooks; Richard M Durbin; Erik P Garrison; Hyun Min Kang; Jan O Korbel; Jonathan L Marchini; Shane McCarthy; Gil A McVean; Gonçalo R Abecasis
Journal:  Nature       Date:  2015-10-01       Impact factor: 49.962

10.  Polycomb group gene BMI1 controls invasion of medulloblastoma cells and inhibits BMP-regulated cell adhesion.

Authors:  Ashirwad Merve; Adrian M Dubuc; Xinyu Zhang; Marc Remke; Patricia A Baxter; Xiao-Nan Li; Michael D Taylor; Silvia Marino
Journal:  Acta Neuropathol Commun       Date:  2014-01-24       Impact factor: 7.801

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  345 in total

1.  A Combination CDK4/6 and IGF1R Inhibitor Strategy for Ewing Sarcoma.

Authors:  Lillian M Guenther; Neekesh V Dharia; Linda Ross; Amy Conway; Amanda L Robichaud; Jerrel L Catlett; Caroline S Wechsler; Elizabeth S Frank; Amy Goodale; Alanna J Church; Yuen-Yi Tseng; Rajarshi Guha; Crystal G McKnight; Katherine A Janeway; Jesse S Boehm; Jaume Mora; Mindy I Davis; Gabriela Alexe; Federica Piccioni; Kimberly Stegmaier
Journal:  Clin Cancer Res       Date:  2018-11-05       Impact factor: 12.531

Review 2.  Genetic and non-genetic clonal diversity in cancer evolution.

Authors:  James R M Black; Nicholas McGranahan
Journal:  Nat Rev Cancer       Date:  2021-03-16       Impact factor: 60.716

3.  Identification of a Structural Determinant for Selective Targeting of HDMX.

Authors:  Yael Ben-Nun; Hyuk-Soo Seo; Edward P Harvey; Zachary J Hauseman; Thomas E Wales; Catherine E Newman; Ann M Cathcart; John R Engen; Sirano Dhe-Paganon; Loren D Walensky
Journal:  Structure       Date:  2020-04-30       Impact factor: 5.006

4.  ABC Transporter Inhibition Plus Dexamethasone Enhances the Efficacy of Convection Enhanced Delivery in H3.3K27M Mutant Diffuse Intrinsic Pontine Glioma.

Authors:  Vadim Tsvankin; Rintaro Hashizume; Hiroaki Katagi; James E Herndon; Christopher Lascola; Talaignair N Venkatraman; Daniel Picard; Brainard Burrus; Oren J Becher; Eric M Thompson
Journal:  Neurosurgery       Date:  2020-05-01       Impact factor: 4.654

5.  European genetic ancestry associated with risk of childhood ependymoma.

Authors:  Chenan Zhang; Quinn T Ostrom; Helen M Hansen; Julio Gonzalez-Maya; Donglei Hu; Elad Ziv; Libby Morimoto; Adam J de Smith; Ivo S Muskens; Cassie N Kline; Zalman Vaksman; Hakon Hakonarson; Sharon J Diskin; Carol Kruchko; Jill S Barnholtz-Sloan; Vijay Ramaswamy; Francis Ali-Osman; Melissa L Bondy; Michael D Taylor; Catherine Metayer; Joseph L Wiemels; Kyle M Walsh
Journal:  Neuro Oncol       Date:  2020-11-26       Impact factor: 12.300

Review 6.  Genomics of adult and pediatric solid tumors.

Authors:  Zahraa Rahal; Farah Abdulhai; Humam Kadara; Raya Saab
Journal:  Am J Cancer Res       Date:  2018-08-01       Impact factor: 6.166

7.  Targeted transcriptional profiling of the tumor microenvironment reveals lymphocyte exclusion and vascular dysfunction in metastatic osteosarcoma.

Authors:  Laurie Sorenson; Yanfen Fu; Tressa Hood; Sarah Warren; Troy A McEachron
Journal:  Oncoimmunology       Date:  2019-06-27       Impact factor: 8.110

8.  CCND2 and CCND3 hijack immunoglobulin light-chain enhancers in cyclin D1- mantle cell lymphoma.

Authors:  David Martín-Garcia; Alba Navarro; Rafael Valdés-Mas; Guillem Clot; Jesús Gutiérrez-Abril; Miriam Prieto; Inmaculada Ribera-Cortada; Renata Woroniecka; Grzegorz Rymkiewicz; Susanne Bens; Laurence de Leval; Andreas Rosenwald; Judith A Ferry; Eric D Hsi; Kai Fu; Jan Delabie; Dennis Weisenburger; Daphne de Jong; Fina Climent; Sheila J O'Connor; Steven H Swerdlow; David Torrents; Sergi Beltran; Blanca Espinet; Blanca González-Farré; Luis Veloza; Dolors Costa; Estella Matutes; Reiner Siebert; German Ott; Leticia Quintanilla-Martinez; Elaine S Jaffe; Carlos López-Otín; Itziar Salaverria; Xose S Puente; Elias Campo; Sílvia Beà
Journal:  Blood       Date:  2018-12-11       Impact factor: 22.113

9.  Landscape of Germline and Somatic Mitochondrial DNA Mutations in Pediatric Malignancies.

Authors:  Petr Triska; Kristiyana Kaneva; Daria Merkurjev; Noor Sohail; Marni J Falk; Timothy J Triche; Jaclyn A Biegel; Xiaowu Gai
Journal:  Cancer Res       Date:  2019-02-01       Impact factor: 12.701

Review 10.  Advancing therapy for osteosarcoma.

Authors:  Jonathan Gill; Richard Gorlick
Journal:  Nat Rev Clin Oncol       Date:  2021-06-15       Impact factor: 66.675

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