Literature DB >> 35120664

Genomic characterization of metastatic patterns from prospective clinical sequencing of 25,000 patients.

Bastien Nguyen1, Christopher Fong1, Anisha Luthra1, Shaleigh A Smith1, Renzo G DiNatale2, Subhiksha Nandakumar1, Henry Walch1, Walid K Chatila1, Ramyasree Madupuri1, Ritika Kundra1, Craig M Bielski3, Brooke Mastrogiacomo1, Mark T A Donoghue4, Adrienne Boire5, Sarat Chandarlapaty6, Karuna Ganesh7, James J Harding8, Christine A Iacobuzio-Donahue9, Pedram Razavi8, Ed Reznik1, Charles M Rudin7, Dmitriy Zamarin8, Wassim Abida10, Ghassan K Abou-Alfa10, Carol Aghajanian10, Andrea Cercek10, Ping Chi10, Darren Feldman10, Alan L Ho10, Gopakumar Iyer10, Yelena Y Janjigian10, Michael Morris10, Robert J Motzer10, Eileen M O'Reilly10, Michael A Postow10, Nitya P Raj10, Gregory J Riely10, Mark E Robson10, Jonathan E Rosenberg10, Anton Safonov10, Alexander N Shoushtari10, William Tap10, Min Yuen Teo10, Anna M Varghese10, Martin Voss10, Rona Yaeger10, Marjorie G Zauderer10, Nadeem Abu-Rustum11, Julio Garcia-Aguilar11, Bernard Bochner11, Abraham Hakimi11, William R Jarnagin11, David R Jones11, Daniela Molena11, Luc Morris11, Eric Rios-Doria11, Paul Russo11, Samuel Singer11, Vivian E Strong11, Debyani Chakravarty12, Lora H Ellenson12, Anuradha Gopalan12, Jorge S Reis-Filho12, Britta Weigelt12, Marc Ladanyi12, Mithat Gonen13, Sohrab P Shah13, Joan Massague14, Jianjiong Gao1, Ahmet Zehir12, Michael F Berger15, David B Solit16, Samuel F Bakhoum17, Francisco Sanchez-Vega18, Nikolaus Schultz19.   

Abstract

Metastatic progression is the main cause of death in cancer patients, whereas the underlying genomic mechanisms driving metastasis remain largely unknown. Here, we assembled MSK-MET, a pan-cancer cohort of over 25,000 patients with metastatic diseases. By analyzing genomic and clinical data from this cohort, we identified associations between genomic alterations and patterns of metastatic dissemination across 50 tumor types. We found that chromosomal instability is strongly correlated with metastatic burden in some tumor types, including prostate adenocarcinoma, lung adenocarcinoma, and HR+/HER2+ breast ductal carcinoma, but not in others, including colorectal cancer and high-grade serous ovarian cancer, where copy-number alteration patterns may be established early in tumor development. We also identified somatic alterations associated with metastatic burden and specific target organs. Our data offer a valuable resource for the investigation of the biological basis for metastatic spread and highlight the complex role of chromosomal instability in cancer progression.
Copyright © 2022 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  DNA sequencing; cancer; clinical sequencing; genomics; metastasis; molecular profiling; mutations; next-generation sequencing; organotropism; pan-cancer

Mesh:

Year:  2022        PMID: 35120664      PMCID: PMC9147702          DOI: 10.1016/j.cell.2022.01.003

Source DB:  PubMed          Journal:  Cell        ISSN: 0092-8674            Impact factor:   66.850


  62 in total

1.  FACETS: allele-specific copy number and clonal heterogeneity analysis tool for high-throughput DNA sequencing.

Authors:  Ronglai Shen; Venkatraman E Seshan
Journal:  Nucleic Acids Res       Date:  2016-06-07       Impact factor: 16.971

Review 2.  Cancer Genome Evolutionary Trajectories in Metastasis.

Authors:  Nicolai J Birkbak; Nicholas McGranahan
Journal:  Cancer Cell       Date:  2020-01-13       Impact factor: 31.743

3.  Understanding the organ tropism of metastatic breast cancer through the combination of liquid biopsy tools.

Authors:  Lorenzo Gerratana; Andrew A Davis; Maurizio Polano; Qiang Zhang; Ami N Shah; Chenyu Lin; Debora Basile; Giuseppe Toffoli; Firas Wehbe; Fabio Puglisi; Amir Behdad; Leonidas C Platanias; William J Gradishar; Massimo Cristofanilli
Journal:  Eur J Cancer       Date:  2020-12-08       Impact factor: 9.162

4.  Origins of lymphatic and distant metastases in human colorectal cancer.

Authors:  Kamila Naxerova; Johannes G Reiter; Elena Brachtel; Jochen K Lennerz; Marc van de Wetering; Andrew Rowan; Tianxi Cai; Hans Clevers; Charles Swanton; Martin A Nowak; Stephen J Elledge; Rakesh K Jain
Journal:  Science       Date:  2017-07-07       Impact factor: 47.728

5.  Memorial Sloan Kettering-Integrated Mutation Profiling of Actionable Cancer Targets (MSK-IMPACT): A Hybridization Capture-Based Next-Generation Sequencing Clinical Assay for Solid Tumor Molecular Oncology.

Authors:  Donavan T Cheng; Talia N Mitchell; Ahmet Zehir; Ronak H Shah; Ryma Benayed; Aijazuddin Syed; Raghu Chandramohan; Zhen Yu Liu; Helen H Won; Sasinya N Scott; A Rose Brannon; Catherine O'Reilly; Justyna Sadowska; Jacklyn Casanova; Angela Yannes; Jaclyn F Hechtman; Jinjuan Yao; Wei Song; Dara S Ross; Alifya Oultache; Snjezana Dogan; Laetitia Borsu; Meera Hameed; Khedoudja Nafa; Maria E Arcila; Marc Ladanyi; Michael F Berger
Journal:  J Mol Diagn       Date:  2015-03-20       Impact factor: 5.568

6.  Complete loss of PTEN protein expression correlates with shorter time to brain metastasis and survival in stage IIIB/C melanoma patients with BRAFV600 mutations.

Authors:  Amanda D Bucheit; Guo Chen; Alan Siroy; Michael Tetzlaff; Russell Broaddus; Denai Milton; Patricia Fox; Roland Bassett; Patrick Hwu; Jeffrey E Gershenwald; Alexander J Lazar; Michael A Davies
Journal:  Clin Cancer Res       Date:  2014-08-27       Impact factor: 12.531

7.  The cBio cancer genomics portal: an open platform for exploring multidimensional cancer genomics data.

Authors:  Ethan Cerami; Jianjiong Gao; Ugur Dogrusoz; Benjamin E Gross; Selcuk Onur Sumer; Bülent Arman Aksoy; Anders Jacobsen; Caitlin J Byrne; Michael L Heuer; Erik Larsson; Yevgeniy Antipin; Boris Reva; Arthur P Goldberg; Chris Sander; Nikolaus Schultz
Journal:  Cancer Discov       Date:  2012-05       Impact factor: 39.397

8.  The Genomic Landscape of Endocrine-Resistant Advanced Breast Cancers.

Authors:  Pedram Razavi; Matthew T Chang; Guotai Xu; Chaitanya Bandlamudi; Dara S Ross; Neil Vasan; Yanyan Cai; Craig M Bielski; Mark T A Donoghue; Philip Jonsson; Alexander Penson; Ronglai Shen; Fresia Pareja; Ritika Kundra; Sumit Middha; Michael L Cheng; Ahmet Zehir; Cyriac Kandoth; Ruchi Patel; Kety Huberman; Lillian M Smyth; Komal Jhaveri; Shanu Modi; Tiffany A Traina; Chau Dang; Wen Zhang; Britta Weigelt; Bob T Li; Marc Ladanyi; David M Hyman; Nikolaus Schultz; Mark E Robson; Clifford Hudis; Edi Brogi; Agnes Viale; Larry Norton; Maura N Dickler; Michael F Berger; Christine A Iacobuzio-Donahue; Sarat Chandarlapaty; Maurizio Scaltriti; Jorge S Reis-Filho; David B Solit; Barry S Taylor; José Baselga
Journal:  Cancer Cell       Date:  2018-09-10       Impact factor: 31.743

9.  A Genomic-Pathologic Annotated Risk Model to Predict Recurrence in Early-Stage Lung Adenocarcinoma.

Authors:  Gregory D Jones; Whitney S Brandt; Ronglai Shen; Francisco Sanchez-Vega; Kay See Tan; Axel Martin; Jian Zhou; Michael Berger; David B Solit; Nikolaus Schultz; Hira Rizvi; Yuan Liu; Ariana Adamski; Jamie E Chaft; Gregory J Riely; Gaetano Rocco; Matthew J Bott; Daniela Molena; Marc Ladanyi; William D Travis; Natasha Rekhtman; Bernard J Park; Prasad S Adusumilli; David Lyden; Marcin Imielinski; Marty W Mayo; Bob T Li; David R Jones
Journal:  JAMA Surg       Date:  2021-02-10       Impact factor: 14.766

10.  Dynamics of breast-cancer relapse reveal late-recurring ER-positive genomic subgroups.

Authors:  Oscar M Rueda; Stephen-John Sammut; Jose A Seoane; Suet-Feung Chin; Jennifer L Caswell-Jin; Maurizio Callari; Rajbir Batra; Bernard Pereira; Alejandra Bruna; H Raza Ali; Elena Provenzano; Bin Liu; Michelle Parisien; Cheryl Gillett; Steven McKinney; Andrew R Green; Leigh Murphy; Arnie Purushotham; Ian O Ellis; Paul D Pharoah; Cristina Rueda; Samuel Aparicio; Carlos Caldas; Christina Curtis
Journal:  Nature       Date:  2019-03-13       Impact factor: 49.962

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  18 in total

1.  Huge cancer database yields genetic clues to metastasis.

Authors: 
Journal:  Nature       Date:  2022-02       Impact factor: 49.962

2.  The NALCN channel regulates metastasis and nonmalignant cell dissemination.

Authors:  Eric P Rahrmann; David Shorthouse; Amir Jassim; Linda P Hu; Mariaestela Ortiz; Betania Mahler-Araujo; Peter Vogel; Marta Paez-Ribes; Atefeh Fatemi; Gregory J Hannon; Radhika Iyer; Jay A Blundon; Filipe C Lourenço; Jonathan Kay; Rosalynn M Nazarian; Benjamin A Hall; Stanislav S Zakharenko; Douglas J Winton; Liqin Zhu; Richard J Gilbertson
Journal:  Nat Genet       Date:  2022-09-29       Impact factor: 41.307

3.  New Perspectives on the Role of Integrin-Linked Kinase (ILK) Signaling in Cancer Metastasis.

Authors:  Paul C McDonald; Shoukat Dedhar
Journal:  Cancers (Basel)       Date:  2022-06-30       Impact factor: 6.575

4.  Clinical sequencing of soft tissue and bone sarcomas delineates diverse genomic landscapes and potential therapeutic targets.

Authors:  Benjamin A Nacev; Francisco Sanchez-Vega; Shaleigh A Smith; Cristina R Antonescu; Evan Rosenbaum; Hongyu Shi; Cerise Tang; Nicholas D Socci; Satshil Rana; Rodrigo Gularte-Mérida; Ahmet Zehir; Mrinal M Gounder; Timothy G Bowler; Anisha Luthra; Bhumika Jadeja; Azusa Okada; Jonathan A Strong; Jake Stoller; Jason E Chan; Ping Chi; Sandra P D'Angelo; Mark A Dickson; Ciara M Kelly; Mary Louise Keohan; Sujana Movva; Katherine Thornton; Paul A Meyers; Leonard H Wexler; Emily K Slotkin; Julia L Glade Bender; Neerav N Shukla; Martee L Hensley; John H Healey; Michael P La Quaglia; Kaled M Alektiar; Aimee M Crago; Sam S Yoon; Brian R Untch; Sarah Chiang; Narasimhan P Agaram; Meera R Hameed; Michael F Berger; David B Solit; Nikolaus Schultz; Marc Ladanyi; Samuel Singer; William D Tap
Journal:  Nat Commun       Date:  2022-06-15       Impact factor: 17.694

5.  The close interaction between hypoxia-related proteins and metastasis in pancarcinomas.

Authors:  Andrés López-Cortés; Lavanya Prathap; Esteban Ortiz-Prado; Nikolaos C Kyriakidis; Ángela León Cáceres; Isaac Armendáriz-Castillo; Antonella Vera-Guapi; Verónica Yumiceba; Katherine Simbaña-Rivera; Gabriela Echeverría-Garcés; Jennyfer M García-Cárdenas; Andy Pérez-Villa; Patricia Guevara-Ramírez; Andrea Abad-Sojos; Jhommara Bautista; Lourdes Puig San Andrés; Nelson Varela; Santiago Guerrero
Journal:  Sci Rep       Date:  2022-06-30       Impact factor: 4.996

Review 6.  Colorectal Cancer Heterogeneity and the Impact on Precision Medicine and Therapy Efficacy.

Authors:  Gerardo Rosati; Giuseppe Aprile; Alfredo Colombo; Stefano Cordio; Marianna Giampaglia; Alessandro Cappetta; Concetta Maria Porretto; Alfonso De Stefano; Domenico Bilancia; Antonio Avallone
Journal:  Biomedicines       Date:  2022-04-30

Review 7.  Prostate Cancer Brain Metastasis: Review of a Rare Complication with Limited Treatment Options and Poor Prognosis.

Authors:  Kobisha Rajeswaran; Kaitlin Muzio; Juan Briones; Mary Jane Lim-Fat; Chia-Lin Tseng; Martin Smoragiewicz; Jay Detsky; Urban Emmenegger
Journal:  J Clin Med       Date:  2022-07-18       Impact factor: 4.964

8.  Targeted Next-Generation Sequencing of Thymic Epithelial Tumours Revealed Pathogenic Variants in KIT, ERBB2, KRAS, and TP53 in 30% of Thymic Carcinomas.

Authors:  Adam Szpechcinski; Malgorzata Szolkowska; Sebastian Winiarski; Urszula Lechowicz; Piotr Wisniewski; Magdalena Knetki-Wroblewska
Journal:  Cancers (Basel)       Date:  2022-07-12       Impact factor: 6.575

9.  Editorial: Cancer evolution: From biological insights to therapeutic opportunities.

Authors:  Andrew A Davis; Lorenzo Gerratana; Marco Mina
Journal:  Front Genet       Date:  2022-08-09       Impact factor: 4.772

10.  Novel GIRlncRNA Signature for Predicting the Clinical Outcome and Therapeutic Response in NSCLC.

Authors:  Qiangzhe Zhang; Xicheng Liu; Zhinan Chen; Sihe Zhang
Journal:  Front Pharmacol       Date:  2022-08-03       Impact factor: 5.988

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