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Pentsova EI, Shah RH, Tang J, Boire A, You D, Briggs S, Omuro A, Lin X, Fleisher M, Grommes C, Panageas KS, Meng F, Selcuklu SD, Ogilvie S, Distefano N, Shagabayeva L, Rosenblum M, DeAngelis LM, Viale A, Mellinghoff IK, Berger MF. Evaluating Cancer of the Central Nervous System Through Next-Generation Sequencing of Cerebrospinal Fluid. J Clin Oncol 2016; 34:2404-15. [PMID: 27161972 PMCID: PMC4981784 DOI: 10.1200/jco.2016.66.6487] [Citation(s) in RCA: 263] [Impact Index Per Article: 32.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022] Open
Abstract
PURPOSE Cancer spread to the central nervous system (CNS) often is diagnosed late and is unresponsive to therapy. Mechanisms of tumor dissemination and evolution within the CNS are largely unknown because of limited access to tumor tissue. MATERIALS AND METHODS We sequenced 341 cancer-associated genes in cell-free DNA from cerebrospinal fluid (CSF) obtained through routine lumbar puncture in 53 patients with suspected or known CNS involvement by cancer. RESULTS We detected high-confidence somatic alterations in 63% (20 of 32) of patients with CNS metastases of solid tumors, 50% (six of 12) of patients with primary brain tumors, and 0% (zero of nine) of patients without CNS involvement by cancer. Several patients with tumor progression in the CNS during therapy with inhibitors of oncogenic kinases harbored mutations in the kinase target or kinase bypass pathways. In patients with glioma, the most common malignant primary brain tumor in adults, examination of cell-free DNA uncovered patterns of tumor evolution, including temozolomide-associated mutations. CONCLUSION The study shows that CSF harbors clinically relevant genomic alterations in patients with CNS cancers and should be considered for liquid biopsies to monitor tumor evolution in the CNS.
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Affiliation(s)
- Elena I Pentsova
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Ronak H Shah
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Jiabin Tang
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Adrienne Boire
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Daoqi You
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Samuel Briggs
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Antonio Omuro
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Xuling Lin
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Martin Fleisher
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Christian Grommes
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Katherine S Panageas
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Fanli Meng
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - S Duygu Selcuklu
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Shahiba Ogilvie
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Natalie Distefano
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Larisa Shagabayeva
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Marc Rosenblum
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Lisa M DeAngelis
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Agnes Viale
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
| | - Ingo K Mellinghoff
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY.
| | - Michael F Berger
- Elena I. Pentsova, Ronak H. Shah, Jiabin Tang, Adrienne Boire, Daoqi You, Samuel Briggs, Antonio Omuro, Xuling Lin, Martin Fleisher, Christian Grommes, Katherine S. Panageas, Fanli Meng, S. Duygu Selcuklu, Shahiba Ogilvie, Natalie Distefano, Larisa Shagabayeva, Marc Rosenblum, Lisa M. DeAngelis, Agnes Viale, Ingo K. Mellinghoff, and Michael F. Berger, Memorial Sloan Kettering Cancer Center; Ingo K. Mellinghoff, Weill-Cornell Graduate School of Biomedical Sciences; and Michael F. Berger, Weill-Cornell Medical College, New York, NY
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