Cited by 3,380Cancer Genomics and DiagnosticsBRCA gene mutations in cancerGenomics and Rare Diseases

Mutational landscape of metastatic cancer revealed from prospective clinical sequencing of 10,000 patients

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Zehir, Ahmet, Benayed, Ryma, Shah, Ronak H, Syed, Aijazuddin, Middha, Sumit, Kim, Hyunjae R, Srinivasan, Preethi, Gao, Jianjiong +92 more·2017·Nature Medicine

Abstract

Tumor molecular profiling is a fundamental component of precision oncology, enabling the identification of genomic alterations in genes and pathways that can be targeted therapeutically. The existence of recurrent targetable alterations across distinct histologically defined tumor types, coupled with an expanding portfolio of molecularly targeted therapies, demands flexible and comprehensive approaches to profile clinically relevant genes across the full spectrum of cancers. We established a large-scale, prospective clinical sequencing initiative using a comprehensive assay, MSK-IMPACT, through which we have compiled tumor and matched normal sequence data from a unique cohort of more than 10,000 patients with advanced cancer and available pathological and clinical annotations. Using these data, we identified clinically relevant somatic mutations, novel noncoding alterations, and mutational signatures that were shared by common and rare tumor types. Patients were enrolled on genomically matched clinical trials at a rate of 11%. To enable discovery of novel biomarkers and deeper investigation into rare alterations and tumor types, all results are publicly accessible.

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  • KRAS and PIK3CA concomitant mutations were found in 26.7% of CRC cases in the MSK-IMPACT study.

    “KRAS and PIK3CA concomitant mutations were found in 26.7% of CRC cases in the MSK-IMPACT study, although our genomic analysis showed 42% due to the small sample size31.”

    From Mechanisms of KRAS inhibitor resistance in KRAS-mutant colorectal cancer harboring Her2 amplification and aberrant KRAS localization (2025) · cites this paper as [31]

    The Results section, “Landscape of Somatically Altered Genes” (page unavailable), reports KRAS mutations in 44% of colon adenocarcinomas and mentions recurrent PIK3CA mutations. It does not report how often the two mutations occurred together in colorectal cancer; searches for their co-occurrence and for 26.7% found no supporting passage in our copy. (LLM, conf=0.76)

    Experimental — accuracy not yet measured
  • MSK-IMPACT is an NGS assay that can detect variants in up to 505 unique cancer genes, including EGFR, TP53, KRAS, STK11, and ALK.

    “MSK-IMPACT is an NGS assay that can detect variants in up to 505 unique cancer genes, including EGFR, TP53, KRAS, STK11, and ALK.”
  • Genome-wide association studies of specific cancers or the cancer genome atlas project identified frequent mutations in genes encoding epigenetic components.

    “Genome-wide association studies of specific types of cancer or from the cancer genome atlas project have identified frequent mutations in genes that encode epigenetic components 57,58,143 .”
  • About 20% of all malignancies have a RAS abnormality, and about 17% of solid tumours have KRAS mutations, including about 90% of pancreatic, 50% of colon and 25% of lung adenocarcinomas.

    “each dataset indicates that ~20% of all malignancies have a RAS abnormality. Overall, ~17% of solid tumours have KRAS mutations, including ~90% of pancreatic, ~50% of colon and ~25% of lung adenocarcinomas16,17”
  • KRAS is the most frequently mutated oncogene in human malignancies.

    “Known as the ‘holy grail’ of targeted cancer therapies, KRAS is the most frequently mutated oncogene in human malignancies.”

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Authors
Zehir, A., Benayed, R., Shah, R. H., Syed, A., Middha, S., Kim, H. R., Srinivasan, P., Gao, J., Chakravarty, D., Devlin, S. M., Hellmann, M. D., Barron, D. A., Schram, A. M., Hameed, M., Dogan, S., Ross, D. S., Hechtman, J. F., DeLair, D. F., Yao, J., Mandelker, D. L., Cheng, D. T., Chandramohan, R., Mohanty, A. S., Ptashkin, R. N., Jayakumaran, G., Prasad, M., Syed, M. H., Rema, A. B., Liu, Z. Y., Nafa, K., Borsu, L., Sadowska, J., Casanova, J., Bacares, R., Kiecka, I. J., Razumova, A., Son, J. B., Stewart, L., Baldi, T., Mullaney, K. A., Al-Ahmadie, H., Vakiani, E., Abeshouse, A. A., Penson, A. V., Jonsson, P., Camacho, N., Chang, M. T., Won, H. H., Gross, B. E., Kundra, R., Heins, Z. J., Chen, H.-W., Phillips, S., Zhang, H., Wang, J., Ochoa, A., Wills, J., Eubank, M., Thomas, S. B., Gardos, S. M., Reales, D. N., Galle, J., Durany, R., Cambria, R., Abida, W., Cercek, A., Feldman, D. R., Gounder, M. M., Hakimi, A. A., Harding, J. J., Iyer, G., Janjigian, Y. Y., Jordan, E. J., Kelly, C. M., Lowery, M. A., Morris, L. G. T., Omuro, A. M., Raj, N., Razavi, P., Shoushtari, A. N., Shukla, N., Soumerai, T. E., Varghese, A. M., Yaeger, R., Coleman, J., Bochner, B., Riely, G. J., Saltz, L. B., Scher, H. I., Sabbatini, P. J., Robson, M. E., Klimstra, D. S., Taylor, B. S., Baselga, J., Schultz, N., Hyman, D. M., Arcila, M. E., Solit, D. B., Ladanyi, M., & Berger, M. F.
Affiliations
Memorial Sloan Kettering Cancer Center (US)
Corresponding author
Berger, Michael F
Venue
Nature Medicine
Published
2017-05-08
Volume
23
Issue
6
Pages
703-713
ISSN
  • 1078-8956 (ISSN-L)
  • 1546-170X
OpenAlex
W2613362156
Cited by
3,380
References
64
Citations by year
2026: 188 · 2025: 306 · 2024: 344 · 2023: 419 · 2022: 418 · 2021: 485 · 2020: 498 · 2019: 380 · 2018: 265 · 2017: 65
FWCI
111.17
Type
journal article
Language
en
Update notices
erratum (2017-08-01)
Open access
Locations
  • Nature Medicine (publishedVersion)
  • PubMed (publishedVersion)
  • Europe PMC (PubMed Central) (acceptedVersion)
  • PubMed Central (acceptedVersion)
Funders
  • National Cancer Institute (R01CA204749, R01CA182587, P01CA129243, P30CA008748, P50CA092629)
  • National Institute of Dental and Craniofacial Research (K08DE024774)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Cancer Research › Cancer Genomics and Diagnostics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › BRCA gene mutations in cancer
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genomics and Rare Diseases
Keywords
metastatic cancer, mutational landscape, MSK-IMPACT, clinical sequencing, somatic mutations, copy number alterations, structural variants, mutational signatures, precision oncology, targeted therapy, biomarkers, advanced solid tumors
MeSH terms
DNA, Neoplasm, Feasibility Studies, Female, Humans, Male, Mutation, Neoplasm Metastasis, Neoplasms, Prospective Studies, Biomarkers, Tumor, Cohort Studies, Sequence Analysis, DNA, Genomics, Data Mining, High-Throughput Nucleotide Sequencing

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