Literature DB >> 29438696

The Integrated Genomic Landscape of Thymic Epithelial Tumors.

Milan Radovich1, Curtis R Pickering2, Ina Felau3, Gavin Ha4, Hailei Zhang4, Heejoon Jo5, Katherine A Hoadley5, Pavana Anur6, Jiexin Zhang2, Mike McLellan7, Reanne Bowlby8, Thomas Matthew9, Ludmila Danilova10, Apurva M Hegde2, Jaegil Kim4, Mark D M Leiserson11, Geetika Sethi12, Charles Lu7, Michael Ryan2, Xiaoping Su2, Andrew D Cherniack4, Gordon Robertson8, Rehan Akbani2, Paul Spellman6, John N Weinstein2, D Neil Hayes5, Ben Raphael11, Tara Lichtenberg13, Kristen Leraas13, Jean Claude Zenklusen3, Junya Fujimoto2, Cristovam Scapulatempo-Neto14, Andre L Moreira15, David Hwang16, James Huang17, Mirella Marino18, Robert Korst19, Giuseppe Giaccone20, Yesim Gokmen-Polar1, Sunil Badve1, Arun Rajan3, Philipp Ströbel21, Nicolas Girard22, Ming S Tsao23, Alexander Marx24, Anne S Tsao25, Patrick J Loehrer26.   

Abstract

Thymic epithelial tumors (TETs) are one of the rarest adult malignancies. Among TETs, thymoma is the most predominant, characterized by a unique association with autoimmune diseases, followed by thymic carcinoma, which is less common but more clinically aggressive. Using multi-platform omics analyses on 117 TETs, we define four subtypes of these tumors defined by genomic hallmarks and an association with survival and World Health Organization histological subtype. We further demonstrate a marked prevalence of a thymoma-specific mutated oncogene, GTF2I, and explore its biological effects on multi-platform analysis. We further observe enrichment of mutations in HRAS, NRAS, and TP53. Last, we identify a molecular link between thymoma and the autoimmune disease myasthenia gravis, characterized by tumoral overexpression of muscle autoantigens, and increased aneuploidy.
Copyright © 2018 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  TCGA; autoimmunity; genomics; myasthenia gravis; proteomics; thymic carcinoma; thymic epithelial tumors; thymoma; transcriptomics

Mesh:

Substances:

Year:  2018        PMID: 29438696      PMCID: PMC5994906          DOI: 10.1016/j.ccell.2018.01.003

Source DB:  PubMed          Journal:  Cancer Cell        ISSN: 1535-6108            Impact factor:   31.743


  114 in total

1.  The IASLC/ITMIG Thymic Epithelial Tumors Staging Project: proposal for an evidence-based stage classification system for the forthcoming (8th) edition of the TNM classification of malignant tumors.

Authors:  Frank C Detterbeck; Kelly Stratton; Dorothy Giroux; Hisao Asamura; John Crowley; Conrad Falkson; Pier Luigi Filosso; Aletta A Frazier; Giuseppe Giaccone; James Huang; Jhingook Kim; Kazuya Kondo; Marco Lucchi; Mirella Marino; Edith M Marom; Andrew G Nicholson; Meinoshin Okumura; Enrico Ruffini; Paul Van Schil
Journal:  J Thorac Oncol       Date:  2014-09       Impact factor: 15.609

2.  De novo assembly and analysis of RNA-seq data.

Authors:  Gordon Robertson; Jacqueline Schein; Readman Chiu; Richard Corbett; Matthew Field; Shaun D Jackman; Karen Mungall; Sam Lee; Hisanaga Mark Okada; Jenny Q Qian; Malachi Griffith; Anthony Raymond; Nina Thiessen; Timothee Cezard; Yaron S Butterfield; Richard Newsome; Simon K Chan; Rong She; Richard Varhol; Baljit Kamoh; Anna-Liisa Prabhu; Angela Tam; YongJun Zhao; Richard A Moore; Martin Hirst; Marco A Marra; Steven J M Jones; Pamela A Hoodless; Inanc Birol
Journal:  Nat Methods       Date:  2010-10-10       Impact factor: 28.547

3.  Reverse phase protein array: validation of a novel proteomic technology and utility for analysis of primary leukemia specimens and hematopoietic stem cells.

Authors:  Raoul Tibes; Yihua Qiu; Yiling Lu; Bryan Hennessy; Michael Andreeff; Gordon B Mills; Steven M Kornblau
Journal:  Mol Cancer Ther       Date:  2006-10       Impact factor: 6.261

4.  Neurofilament is an autoantigenic determinant in myasthenia gravis.

Authors:  A Schultz; V Hoffacker; A Wilisch; W Nix; R Gold; B Schalke; S Tzartos; H K Müller-Hermelink; A Marx
Journal:  Ann Neurol       Date:  1999-08       Impact factor: 10.422

5.  Autoimmune associations and autoantibody screening show focused recognition in patient subgroups with generalized myasthenia gravis.

Authors:  Reinhild Klein; Alexander Marx; Philipp Ströbel; Berthold Schalke; Wilfred Nix; Nick Willcox
Journal:  Hum Immunol       Date:  2013-06-18       Impact factor: 2.850

6.  Absence of acetylcholine-induced current in epithelial cells from thymus glands and thymomas of myasthenia gravis patients.

Authors:  J Siara; R Rüdel; A Marx
Journal:  Neurology       Date:  1991-01       Impact factor: 9.910

7.  Factors influencing the interaction of herpes simplex virus glycoprotein C with the third component of complement.

Authors:  H P Huemer; C Larcher; M P Dierich; D Falke
Journal:  Arch Virol       Date:  1992       Impact factor: 2.574

8.  RADIA: RNA and DNA integrated analysis for somatic mutation detection.

Authors:  Amie J Radenbaugh; Singer Ma; Adam Ewing; Joshua M Stuart; Eric A Collisson; Jingchun Zhu; David Haussler
Journal:  PLoS One       Date:  2014-11-18       Impact factor: 3.240

9.  PID: the Pathway Interaction Database.

Authors:  Carl F Schaefer; Kira Anthony; Shiva Krupa; Jeffrey Buchoff; Matthew Day; Timo Hannay; Kenneth H Buetow
Journal:  Nucleic Acids Res       Date:  2008-10-02       Impact factor: 16.971

10.  A gene signature to determine metastatic behavior in thymomas.

Authors:  Yesim Gökmen-Polar; Robert W Cook; Chirayu Pankaj Goswami; Jeff Wilkinson; Derek Maetzold; John F Stone; Kristen M Oelschlager; Ioan Tudor Vladislav; Kristen L Shirar; Kenneth A Kesler; Patrick J Loehrer; Sunil Badve
Journal:  PLoS One       Date:  2013-07-24       Impact factor: 3.240

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  94 in total

1.  LINC00174 is a novel prognostic factor in thymic epithelial tumors involved in cell migration and lipid metabolism.

Authors:  Claudia Tito; Federica Ganci; Andrea Sacconi; Silvia Masciarelli; Giulia Fontemaggi; Claudio Pulito; Enzo Gallo; Valentina Laquintana; Alessia Iaiza; Luciana De Angelis; Anna Benedetti; Jessica Cacciotti; Selenia Miglietta; Maria Bellenghi; Alessandra Carè; Alessandro Fatica; Daniele Diso; Marco Anile; Vincenzo Petrozza; Francesco Facciolo; Gabriele Alessandrini; Edoardo Pescarmona; Federico Venuta; Mirella Marino; Giovanni Blandino; Francesco Fazi
Journal:  Cell Death Dis       Date:  2020-11-07       Impact factor: 8.469

Review 2.  Metastatic Thymoma Harboring a Deleterious BRCA2 Mutation Derives Durable Clinical Benefit from Olaparib.

Authors:  Daniel R Principe; Suneel D Kamath; Hidayatullah G Munshi; Nisha A Mohindra
Journal:  Oncologist       Date:  2019-11-01

Review 3.  Common and rare carcinomas of the thymus.

Authors:  Anja C Roden; Malgorzata Szolkowska
Journal:  Virchows Arch       Date:  2021-01-03       Impact factor: 4.064

4.  Mutant GTF2I induces cell transformation and metabolic alterations in thymic epithelial cells.

Authors:  In-Kyu Kim; Guanhua Rao; Xiaoliang Zhao; Ruzong Fan; Maria Laura Avantaggiati; Yisong Wang; Yu-Wen Zhang; Giuseppe Giaccone
Journal:  Cell Death Differ       Date:  2020-02-07       Impact factor: 15.828

Review 5.  Statistical genomics in rare cancer.

Authors:  Farnoosh Abbas-Aghababazadeh; Qianxing Mo; Brooke L Fridley
Journal:  Semin Cancer Biol       Date:  2019-08-19       Impact factor: 15.707

6.  Pan-Cancer Landscape Analysis Reveals Recurrent KMT2A-MAML2 Gene Fusion in Aggressive Histologic Subtypes of Thymoma.

Authors:  Lucas R Massoth; Yin P Hung; Dora Dias-Santagata; Maristela Onozato; Nikunj Shah; Eric Severson; Daniel Duncan; Brendan J Gillespie; Nathan F Williams; Jeffrey S Ross; Jo-Anne Vergilio; Shannon K Harkins; Krzysztof Glomski; Valentina Nardi; Lawrence R Zukerberg; Robert P Hasserjian; Abner Louissaint; Erik A Williams
Journal:  JCO Precis Oncol       Date:  2020-02-26

Review 7.  A compendium of mutational cancer driver genes.

Authors:  Francisco Martínez-Jiménez; Ferran Muiños; Inés Sentís; Jordi Deu-Pons; Iker Reyes-Salazar; Claudia Arnedo-Pac; Loris Mularoni; Oriol Pich; Jose Bonet; Hanna Kranas; Abel Gonzalez-Perez; Nuria Lopez-Bigas
Journal:  Nat Rev Cancer       Date:  2020-08-10       Impact factor: 60.716

8.  Immunohistochemistry biomarker TP53 expression predicts the survival of thymomas.

Authors:  Dongliang Bian; Liting Zhao; Xuelin Zhang; Fanzhen Lv; Zhenghong Zhu; Hui Qiu; Huibiao Zhang
Journal:  Gland Surg       Date:  2020-04

9.  Mutational landscape of thymic epithelial tumors in a Chinese population: insights into potential clinical implications.

Authors:  Hongbiao Wang; Xiaohua Xu; Lan Luo; Chunbing Wang; Zeyong Jiang; Yingcheng Lin
Journal:  Gland Surg       Date:  2021-04

10.  Per-sample standardization and asymmetric winsorization lead to accurate clustering of RNA-seq expression profiles.

Authors:  Davide Risso; Stefano Maria Pagnotta
Journal:  Bioinformatics       Date:  2021-02-09       Impact factor: 6.937

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