Literature DB >> 30146332

Identification of Therapeutic Targets in Rhabdomyosarcoma through Integrated Genomic, Epigenomic, and Proteomic Analyses.

Elizabeth Stewart1, Justina McEvoy2, Hong Wang3, Xiang Chen4, Victoria Honnell1, Monica Ocarz5, Brittney Gordon5, Jason Dapper1, Kaley Blankenship6, Yanling Yang7, Yuxin Li8, Timothy I Shaw9, Ji-Hoon Cho10, Xusheng Wang10, Beisi Xu4, Pankaj Gupta4, Yiping Fan4, Yu Liu4, Michael Rusch4, Lyra Griffiths5, Jongrye Jeon5, Burgess B Freeman11, Michael R Clay12, Alberto Pappo6, John Easton4, Sheila Shurtleff12, Anang Shelat13, Xin Zhou4, Kristy Boggs4, Heather Mulder4, Donald Yergeau4, Armita Bahrami12, Elaine R Mardis14, Richard K Wilson15, Jinghui Zhang4, Junmin Peng7, James R Downing12, Michael A Dyer16.   

Abstract

Personalized cancer therapy targeting somatic mutations in patient tumors is increasingly being incorporated into practice. Other therapeutic vulnerabilities resulting from changes in gene expression due to tumor specific epigenetic perturbations are progressively being recognized. These genomic and epigenomic changes are ultimately manifest in the tumor proteome and phosphoproteome. We integrated transcriptomic, epigenomic, and proteomic/phosphoproteomic data to elucidate the cellular origins and therapeutic vulnerabilities of rhabdomyosarcoma (RMS). We discovered that alveolar RMS occurs further along the developmental program than embryonal RMS. We also identified deregulation of the RAS/MEK/ERK/CDK4/6, G2/M, and unfolded protein response pathways through our integrated analysis. Comprehensive preclinical testing revealed that targeting the WEE1 kinase in the G2/M pathway is the most effective approach in vivo for high-risk RMS.
Copyright © 2018 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  epigenetics; molecular targeted therapy; pediatric cancer; preclinical testing; proteomics; rhabdomyosarcoma

Mesh:

Substances:

Year:  2018        PMID: 30146332      PMCID: PMC6158019          DOI: 10.1016/j.ccell.2018.07.012

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


  65 in total

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Journal:  Cell Rep       Date:  2014-10-23       Impact factor: 9.423

2.  Efficacy of PARP Inhibitor Rucaparib in Orthotopic Glioblastoma Xenografts Is Limited by Ineffective Drug Penetration into the Central Nervous System.

Authors:  Karen E Parrish; Ling Cen; James Murray; David Calligaris; Sani Kizilbash; Rajendar K Mittapalli; Brett L Carlson; Mark A Schroeder; Julieann Sludden; Alan V Boddy; Nathalie Y R Agar; Nicola J Curtin; William F Elmquist; Jann N Sarkaria
Journal:  Mol Cancer Ther       Date:  2015-10-05       Impact factor: 6.261

3.  Integrative Proteomics and Phosphoproteomics Profiling Reveals Dynamic Signaling Networks and Bioenergetics Pathways Underlying T Cell Activation.

Authors:  Haiyan Tan; Kai Yang; Yuxin Li; Timothy I Shaw; Yanyan Wang; Daniel Bastardo Blanco; Xusheng Wang; Ji-Hoon Cho; Hong Wang; Sherri Rankin; Cliff Guy; Junmin Peng; Hongbo Chi
Journal:  Immunity       Date:  2017-03-09       Impact factor: 31.745

4.  Exploring genomic alteration in pediatric cancer using ProteinPaint.

Authors:  Xin Zhou; Michael N Edmonson; Mark R Wilkinson; Aman Patel; Gang Wu; Yu Liu; Yongjin Li; Zhaojie Zhang; Michael C Rusch; Matthew Parker; Jared Becksfort; James R Downing; Jinghui Zhang
Journal:  Nat Genet       Date:  2016-01       Impact factor: 38.330

5.  Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.

Authors:  Aravind Subramanian; Pablo Tamayo; Vamsi K Mootha; Sayan Mukherjee; Benjamin L Ebert; Michael A Gillette; Amanda Paulovich; Scott L Pomeroy; Todd R Golub; Eric S Lander; Jill P Mesirov
Journal:  Proc Natl Acad Sci U S A       Date:  2005-09-30       Impact factor: 11.205

6.  Combined chemical-genetic approach identifies cytosolic HSP70 dependence in rhabdomyosarcoma.

Authors:  Amit J Sabnis; Christopher J Guerriero; Victor Olivas; Anin Sayana; Jonathan Shue; Jennifer Flanagan; Saurabh Asthana; Adrienne W Paton; James C Paton; Jason E Gestwicki; Peter Walter; Jonathan S Weissman; Peter Wipf; Jeffrey L Brodsky; Trever G Bivona
Journal:  Proc Natl Acad Sci U S A       Date:  2016-07-22       Impact factor: 11.205

7.  Trends in childhood rhabdomyosarcoma incidence and survival in the United States, 1975-2005.

Authors:  Simona Ognjanovic; Amy M Linabery; Bridget Charbonneau; Julie A Ross
Journal:  Cancer       Date:  2009-09-15       Impact factor: 6.860

Review 8.  MEK and PI3K inhibition in solid tumors: rationale and evidence to date.

Authors:  E Jokinen; J P Koivunen
Journal:  Ther Adv Med Oncol       Date:  2015-05       Impact factor: 8.168

9.  Targeting oxidative stress in embryonal rhabdomyosarcoma.

Authors:  Xiang Chen; Elizabeth Stewart; Anang A Shelat; Chunxu Qu; Armita Bahrami; Mark Hatley; Gang Wu; Cori Bradley; Justina McEvoy; Alberto Pappo; Sheri Spunt; Marcus B Valentine; Virginia Valentine; Fred Krafcik; Walter H Lang; Monika Wierdl; Lyudmila Tsurkan; Viktor Tolleman; Sara M Federico; Chris Morton; Charles Lu; Li Ding; John Easton; Michael Rusch; Panduka Nagahawatte; Jianmin Wang; Matthew Parker; Lei Wei; Erin Hedlund; David Finkelstein; Michael Edmonson; Sheila Shurtleff; Kristy Boggs; Heather Mulder; Donald Yergeau; Steve Skapek; Douglas S Hawkins; Nilsa Ramirez; Philip M Potter; John A Sandoval; Andrew M Davidoff; Elaine R Mardis; Richard K Wilson; Jinghui Zhang; James R Downing; Michael A Dyer
Journal:  Cancer Cell       Date:  2013-12-09       Impact factor: 31.743

10.  BRAID: A Unifying Paradigm for the Analysis of Combined Drug Action.

Authors:  Nathaniel R Twarog; Elizabeth Stewart; Courtney Vowell Hammill; Anang A Shelat
Journal:  Sci Rep       Date:  2016-05-10       Impact factor: 4.379

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  48 in total

Review 1.  Insights into pediatric rhabdomyosarcoma research: Challenges and goals.

Authors:  Marielle E Yohe; Christine M Heske; Elizabeth Stewart; Peter C Adamson; Nabil Ahmed; Cristina R Antonescu; Eleanor Chen; Natalie Collins; Alan Ehrlich; Rene L Galindo; Berkley E Gryder; Heidi Hahn; Sharon Hammond; Mark E Hatley; Douglas S Hawkins; Madeline N Hayes; Andrea Hayes-Jordan; Lee J Helman; Simone Hettmer; Myron S Ignatius; Charles Keller; Javed Khan; David G Kirsch; Corinne M Linardic; Philip J Lupo; Rossella Rota; Jack F Shern; Janet Shipley; Sivasish Sindiri; Stephen J Tapscott; Christopher R Vakoc; Leonard H Wexler; David M Langenau
Journal:  Pediatr Blood Cancer       Date:  2019-06-21       Impact factor: 3.167

2.  ALS-FTLD-linked mutations of SQSTM1/p62 disrupt selective autophagy and NFE2L2/NRF2 anti-oxidative stress pathway.

Authors:  Zhiqiang Deng; Junghyun Lim; Qian Wang; Kerry Purtell; Shuai Wu; Gloria M Palomo; Haiyan Tan; Giovanni Manfredi; Yanxiang Zhao; Junmin Peng; Bo Hu; Shi Chen; Zhenyu Yue
Journal:  Autophagy       Date:  2019-07-30       Impact factor: 16.016

3.  Phase I Clinical Trial of the Wee1 Inhibitor Adavosertib (AZD1775) with Irinotecan in Children with Relapsed Solid Tumors: A COG Phase I Consortium Report (ADVL1312).

Authors:  Kristina A Cole; Sharmistha Pal; Rachel A Kudgus; Heba Ijaz; Xiaowei Liu; Charles G Minard; Bruce R Pawel; John M Maris; Daphne A Haas-Kogan; Stephan D Voss; Stacey L Berg; Joel M Reid; Elizabeth Fox; Brenda J Weigel
Journal:  Clin Cancer Res       Date:  2019-12-19       Impact factor: 12.531

Review 4.  TP53 in bone and soft tissue sarcomas.

Authors:  Elizabeth Thoenen; Amanda Curl; Tomoo Iwakuma
Journal:  Pharmacol Ther       Date:  2019-07-02       Impact factor: 12.310

5.  Proteomic Profiling of Cerebrospinal Fluid by 16-Plex TMT-Based Mass Spectrometry.

Authors:  Kaushik Kumar Dey; Huan Sun; Zhen Wang; Mingming Niu; Hong Wang; Yun Jiao; Xiaojun Sun; Yuxin Li; Junmin Peng
Journal:  Methods Mol Biol       Date:  2022

6.  Targeting KDM4 for treating PAX3-FOXO1-driven alveolar rhabdomyosarcoma.

Authors:  Shivendra Singh; Ahmed Abu-Zaid; Hongjian Jin; Jie Fang; Qiong Wu; Tingting Wang; Helin Feng; Waise Quarni; Ying Shao; Lily Maxham; Alireza Abdolvahabi; Mi-Kyung Yun; Sivaraja Vaithiyalingam; Haiyan Tan; John Bowling; Victoria Honnell; Brandon Young; Yian Guo; Richa Bajpai; Shondra M Pruett-Miller; Gerard C Grosveld; Mark Hatley; Beisi Xu; Yiping Fan; Gang Wu; Eleanor Y Chen; Taosheng Chen; Peter W Lewis; Zoran Rankovic; Yimei Li; Andrew J Murphy; John Easton; Junmin Peng; Xiang Chen; Ruoning Wang; Stephen W White; Andrew M Davidoff; Jun Yang
Journal:  Sci Transl Med       Date:  2022-07-13       Impact factor: 19.319

Review 7.  Advances in the Management of Pediatric Sarcomas.

Authors:  Fiorela N Hernandez Tejada; Alejandro Zamudio; Mario L Marques-Piubelli; Branko Cuglievan; Douglas Harrison
Journal:  Curr Oncol Rep       Date:  2020-11-16       Impact factor: 5.075

8.  High-Throughput Profiling of Proteome and Posttranslational Modifications by 16-Plex TMT Labeling and Mass Spectrometry.

Authors:  Kaiwen Yu; Zhen Wang; Zhiping Wu; Haiyan Tan; Ashutosh Mishra; Junmin Peng
Journal:  Methods Mol Biol       Date:  2021

9.  Repurposing proscillaridin A in combination with decitabine against embryonal rhabdomyosarcoma RD cells.

Authors:  Marielle Huot; Maxime Caron; Chantal Richer; Rahinatou Djibo; Rafael Najmanovich; Pascal St-Onge; Daniel Sinnett; Noël J M Raynal
Journal:  Cancer Chemother Pharmacol       Date:  2021-07-31       Impact factor: 3.333

Review 10.  Toward a Personalized Therapy in Soft-Tissue Sarcomas: State of the Art and Future Directions.

Authors:  Liliana Montella; Lucia Altucci; Federica Sarno; Carlo Buonerba; Stefano De Simone; Bianca Arianna Facchini; Elisena Franzese; Ferdinando De Vita; Salvatore Tafuto; Massimiliano Berretta; Gaetano Facchini
Journal:  Cancers (Basel)       Date:  2021-05-13       Impact factor: 6.639

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