High-throughput oncogene mutation profiling in human cancer

Roman K. Thomas, Alissa C. Baker, Ralph M. DeBiasi, Wendy Winckler, Thomas LaFramboise, William M. Lin, Meng Wang, Whei Feng, Thomas Zander, Laura E. MacConnaill, Jeffrey C. Lee, Rick Nicoletti, Charlie Hatton, Mary Goyette, Luc Girard, Kuntal Majmudar, Liuda Ziaugra, Kwok Kin Wong, Stacey Gabriel, Rameen BeroukhimMichael Peyton, Jordi Barretina, Amit Dutt, Caroline Emery, Heidi Greulich, Kinjal Shah, Hidefumi Sasaki, Adi Gazdar, John Minna, Scott A. Armstrong, Ingo K. Mellinghoff, F. Stephen Hodi, Glenn Dranoff, Paul S. Mischel, Tim F. Cloughesy, Stan F. Nelson, Linda M. Liau, Kirsten Mertz, Mark A. Rubin, Holger Moch, Massimo Loda, William Catalona, Jonathan Fletcher, Sabina Signoretti, Frederic Kaye, Kenneth C. Anderson, George D. Demetri, Reinhard Dummer, Stephan Wagner, Meenhard Herlyn, William R. Sellers, Matthew Meyerson, Levi A. Garraway

Research output: Contribution to journalArticle

784 Citations (Scopus)

Abstract

Systematic efforts are underway to decipher the genetic changes associated with tumor initiation and progression. However, widespread clinical application of this information is hampered by an inability to identify critical genetic events across the spectrum of human tumors with adequate sensitivity and scalability. Here, we have adapted high-throughput genotyping to query 238 known oncogene mutations across 1,000 human tumor samples. This approach established robust mutation distributions spanning 17 cancer types. Of 17 oncogenes analyzed, we found 14 to be mutated at least once, and 298 (30%) samples carried at least one mutation. Moreover, we identified previously unrecognized oncogene mutations in several tumor types and observed an unexpectedly high number of co-occurring mutations. These results offer a new dimension in tumor genetics, where mutations involving multiple cancer genes may be interrogated simultaneously and in 'real time' to guide cancer classification and rational therapeutic intervention.

Original languageEnglish (US)
Pages (from-to)347-351
Number of pages5
JournalNature Genetics
Volume39
Issue number3
DOIs
StatePublished - Mar 2007

Fingerprint

Oncogenes
Mutation
Neoplasms
Neoplasm Genes

ASJC Scopus subject areas

  • Genetics(clinical)
  • Genetics

Cite this

Thomas, R. K., Baker, A. C., DeBiasi, R. M., Winckler, W., LaFramboise, T., Lin, W. M., ... Garraway, L. A. (2007). High-throughput oncogene mutation profiling in human cancer. Nature Genetics, 39(3), 347-351. https://doi.org/10.1038/ng1975

High-throughput oncogene mutation profiling in human cancer. / Thomas, Roman K.; Baker, Alissa C.; DeBiasi, Ralph M.; Winckler, Wendy; LaFramboise, Thomas; Lin, William M.; Wang, Meng; Feng, Whei; Zander, Thomas; MacConnaill, Laura E.; Lee, Jeffrey C.; Nicoletti, Rick; Hatton, Charlie; Goyette, Mary; Girard, Luc; Majmudar, Kuntal; Ziaugra, Liuda; Wong, Kwok Kin; Gabriel, Stacey; Beroukhim, Rameen; Peyton, Michael; Barretina, Jordi; Dutt, Amit; Emery, Caroline; Greulich, Heidi; Shah, Kinjal; Sasaki, Hidefumi; Gazdar, Adi; Minna, John; Armstrong, Scott A.; Mellinghoff, Ingo K.; Hodi, F. Stephen; Dranoff, Glenn; Mischel, Paul S.; Cloughesy, Tim F.; Nelson, Stan F.; Liau, Linda M.; Mertz, Kirsten; Rubin, Mark A.; Moch, Holger; Loda, Massimo; Catalona, William; Fletcher, Jonathan; Signoretti, Sabina; Kaye, Frederic; Anderson, Kenneth C.; Demetri, George D.; Dummer, Reinhard; Wagner, Stephan; Herlyn, Meenhard; Sellers, William R.; Meyerson, Matthew; Garraway, Levi A.

In: Nature Genetics, Vol. 39, No. 3, 03.2007, p. 347-351.

Research output: Contribution to journalArticle

Thomas, RK, Baker, AC, DeBiasi, RM, Winckler, W, LaFramboise, T, Lin, WM, Wang, M, Feng, W, Zander, T, MacConnaill, LE, Lee, JC, Nicoletti, R, Hatton, C, Goyette, M, Girard, L, Majmudar, K, Ziaugra, L, Wong, KK, Gabriel, S, Beroukhim, R, Peyton, M, Barretina, J, Dutt, A, Emery, C, Greulich, H, Shah, K, Sasaki, H, Gazdar, A, Minna, J, Armstrong, SA, Mellinghoff, IK, Hodi, FS, Dranoff, G, Mischel, PS, Cloughesy, TF, Nelson, SF, Liau, LM, Mertz, K, Rubin, MA, Moch, H, Loda, M, Catalona, W, Fletcher, J, Signoretti, S, Kaye, F, Anderson, KC, Demetri, GD, Dummer, R, Wagner, S, Herlyn, M, Sellers, WR, Meyerson, M & Garraway, LA 2007, 'High-throughput oncogene mutation profiling in human cancer', Nature Genetics, vol. 39, no. 3, pp. 347-351. https://doi.org/10.1038/ng1975
Thomas RK, Baker AC, DeBiasi RM, Winckler W, LaFramboise T, Lin WM et al. High-throughput oncogene mutation profiling in human cancer. Nature Genetics. 2007 Mar;39(3):347-351. https://doi.org/10.1038/ng1975
Thomas, Roman K. ; Baker, Alissa C. ; DeBiasi, Ralph M. ; Winckler, Wendy ; LaFramboise, Thomas ; Lin, William M. ; Wang, Meng ; Feng, Whei ; Zander, Thomas ; MacConnaill, Laura E. ; Lee, Jeffrey C. ; Nicoletti, Rick ; Hatton, Charlie ; Goyette, Mary ; Girard, Luc ; Majmudar, Kuntal ; Ziaugra, Liuda ; Wong, Kwok Kin ; Gabriel, Stacey ; Beroukhim, Rameen ; Peyton, Michael ; Barretina, Jordi ; Dutt, Amit ; Emery, Caroline ; Greulich, Heidi ; Shah, Kinjal ; Sasaki, Hidefumi ; Gazdar, Adi ; Minna, John ; Armstrong, Scott A. ; Mellinghoff, Ingo K. ; Hodi, F. Stephen ; Dranoff, Glenn ; Mischel, Paul S. ; Cloughesy, Tim F. ; Nelson, Stan F. ; Liau, Linda M. ; Mertz, Kirsten ; Rubin, Mark A. ; Moch, Holger ; Loda, Massimo ; Catalona, William ; Fletcher, Jonathan ; Signoretti, Sabina ; Kaye, Frederic ; Anderson, Kenneth C. ; Demetri, George D. ; Dummer, Reinhard ; Wagner, Stephan ; Herlyn, Meenhard ; Sellers, William R. ; Meyerson, Matthew ; Garraway, Levi A. / High-throughput oncogene mutation profiling in human cancer. In: Nature Genetics. 2007 ; Vol. 39, No. 3. pp. 347-351.
@article{c0d0b58f806d4b00a0833bdaad50e061,
title = "High-throughput oncogene mutation profiling in human cancer",
abstract = "Systematic efforts are underway to decipher the genetic changes associated with tumor initiation and progression. However, widespread clinical application of this information is hampered by an inability to identify critical genetic events across the spectrum of human tumors with adequate sensitivity and scalability. Here, we have adapted high-throughput genotyping to query 238 known oncogene mutations across 1,000 human tumor samples. This approach established robust mutation distributions spanning 17 cancer types. Of 17 oncogenes analyzed, we found 14 to be mutated at least once, and 298 (30{\%}) samples carried at least one mutation. Moreover, we identified previously unrecognized oncogene mutations in several tumor types and observed an unexpectedly high number of co-occurring mutations. These results offer a new dimension in tumor genetics, where mutations involving multiple cancer genes may be interrogated simultaneously and in 'real time' to guide cancer classification and rational therapeutic intervention.",
author = "Thomas, {Roman K.} and Baker, {Alissa C.} and DeBiasi, {Ralph M.} and Wendy Winckler and Thomas LaFramboise and Lin, {William M.} and Meng Wang and Whei Feng and Thomas Zander and MacConnaill, {Laura E.} and Lee, {Jeffrey C.} and Rick Nicoletti and Charlie Hatton and Mary Goyette and Luc Girard and Kuntal Majmudar and Liuda Ziaugra and Wong, {Kwok Kin} and Stacey Gabriel and Rameen Beroukhim and Michael Peyton and Jordi Barretina and Amit Dutt and Caroline Emery and Heidi Greulich and Kinjal Shah and Hidefumi Sasaki and Adi Gazdar and John Minna and Armstrong, {Scott A.} and Mellinghoff, {Ingo K.} and Hodi, {F. Stephen} and Glenn Dranoff and Mischel, {Paul S.} and Cloughesy, {Tim F.} and Nelson, {Stan F.} and Liau, {Linda M.} and Kirsten Mertz and Rubin, {Mark A.} and Holger Moch and Massimo Loda and William Catalona and Jonathan Fletcher and Sabina Signoretti and Frederic Kaye and Anderson, {Kenneth C.} and Demetri, {George D.} and Reinhard Dummer and Stephan Wagner and Meenhard Herlyn and Sellers, {William R.} and Matthew Meyerson and Garraway, {Levi A.}",
year = "2007",
month = "3",
doi = "10.1038/ng1975",
language = "English (US)",
volume = "39",
pages = "347--351",
journal = "Nature Genetics",
issn = "1061-4036",
publisher = "Nature Publishing Group",
number = "3",

}

TY - JOUR

T1 - High-throughput oncogene mutation profiling in human cancer

AU - Thomas, Roman K.

AU - Baker, Alissa C.

AU - DeBiasi, Ralph M.

AU - Winckler, Wendy

AU - LaFramboise, Thomas

AU - Lin, William M.

AU - Wang, Meng

AU - Feng, Whei

AU - Zander, Thomas

AU - MacConnaill, Laura E.

AU - Lee, Jeffrey C.

AU - Nicoletti, Rick

AU - Hatton, Charlie

AU - Goyette, Mary

AU - Girard, Luc

AU - Majmudar, Kuntal

AU - Ziaugra, Liuda

AU - Wong, Kwok Kin

AU - Gabriel, Stacey

AU - Beroukhim, Rameen

AU - Peyton, Michael

AU - Barretina, Jordi

AU - Dutt, Amit

AU - Emery, Caroline

AU - Greulich, Heidi

AU - Shah, Kinjal

AU - Sasaki, Hidefumi

AU - Gazdar, Adi

AU - Minna, John

AU - Armstrong, Scott A.

AU - Mellinghoff, Ingo K.

AU - Hodi, F. Stephen

AU - Dranoff, Glenn

AU - Mischel, Paul S.

AU - Cloughesy, Tim F.

AU - Nelson, Stan F.

AU - Liau, Linda M.

AU - Mertz, Kirsten

AU - Rubin, Mark A.

AU - Moch, Holger

AU - Loda, Massimo

AU - Catalona, William

AU - Fletcher, Jonathan

AU - Signoretti, Sabina

AU - Kaye, Frederic

AU - Anderson, Kenneth C.

AU - Demetri, George D.

AU - Dummer, Reinhard

AU - Wagner, Stephan

AU - Herlyn, Meenhard

AU - Sellers, William R.

AU - Meyerson, Matthew

AU - Garraway, Levi A.

PY - 2007/3

Y1 - 2007/3

N2 - Systematic efforts are underway to decipher the genetic changes associated with tumor initiation and progression. However, widespread clinical application of this information is hampered by an inability to identify critical genetic events across the spectrum of human tumors with adequate sensitivity and scalability. Here, we have adapted high-throughput genotyping to query 238 known oncogene mutations across 1,000 human tumor samples. This approach established robust mutation distributions spanning 17 cancer types. Of 17 oncogenes analyzed, we found 14 to be mutated at least once, and 298 (30%) samples carried at least one mutation. Moreover, we identified previously unrecognized oncogene mutations in several tumor types and observed an unexpectedly high number of co-occurring mutations. These results offer a new dimension in tumor genetics, where mutations involving multiple cancer genes may be interrogated simultaneously and in 'real time' to guide cancer classification and rational therapeutic intervention.

AB - Systematic efforts are underway to decipher the genetic changes associated with tumor initiation and progression. However, widespread clinical application of this information is hampered by an inability to identify critical genetic events across the spectrum of human tumors with adequate sensitivity and scalability. Here, we have adapted high-throughput genotyping to query 238 known oncogene mutations across 1,000 human tumor samples. This approach established robust mutation distributions spanning 17 cancer types. Of 17 oncogenes analyzed, we found 14 to be mutated at least once, and 298 (30%) samples carried at least one mutation. Moreover, we identified previously unrecognized oncogene mutations in several tumor types and observed an unexpectedly high number of co-occurring mutations. These results offer a new dimension in tumor genetics, where mutations involving multiple cancer genes may be interrogated simultaneously and in 'real time' to guide cancer classification and rational therapeutic intervention.

UR - http://www.scopus.com/inward/record.url?scp=33847293670&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=33847293670&partnerID=8YFLogxK

U2 - 10.1038/ng1975

DO - 10.1038/ng1975

M3 - Article

C2 - 17293865

AN - SCOPUS:33847293670

VL - 39

SP - 347

EP - 351

JO - Nature Genetics

JF - Nature Genetics

SN - 1061-4036

IS - 3

ER -