Identification of Src transformation fingerprint in human colon cancer

Renae L. Malek; Rosalyn B. Irby; Qingbin M. Guo; Kerry Lee; Sylvia Wong; Mei He; Jennifer Tsai; Bryan Frank; Edison T. Liu; John Quackenbush; Richard Jove; Timothy J. Yeatman; Norman H. Lee

doi:10.1038/sj.onc.1205900

Identification of Src transformation fingerprint in human colon cancer

Renae L. Malek, Rosalyn B. Irby, Qingbin M. Guo, Kerry Lee, Sylvia Wong, Mei He, Jennifer Tsai, Bryan Frank, Edison T. Liu, John Quackenbush, Richard Jove, Timothy J. Yeatman, Norman H. Lee

Research output: Contribution to journal › Article › peer-review

81 Scopus citations

Abstract

We used a classical rodent model of transformation to understand the transcriptional processes, and hence the molecular and cellular events a given cell undergoes when progressing from a normal to a transformed phenotype. Src activation is evident in 80% of human colon cancer, yet the myriad of cellular processes effected at the level of gene expression has yet to be fully documented. We identified a Src 'transformation fingerprint' within the gene expression profiles of Src-transformed rat 3Y1 fibroblasts demonstrating a progression in transformation characteristics. To evaluate the role of this gene set in human cancer development and progression, we extracted the orthologous genes present on the Affymetrix Hu95A GeneChip^™ (12k named genes) and compared expression profiles between the Src-induced rodent cell line model of transformation and staged colon tumors where Src is known to be activated. A similar gene expression pattern between the cell line model and staged colon tumors for components of the cell cycle, cytoskeletal associated proteins, transcription factors and lysosomal proteins suggests the need for co-regulation of several cellular processes in the progression of cancer. Genes not previously implicated in tumorigenesis were detected, as well as a set of 14 novel, highly conserved genes with here-to-fore unknown function. These studies define a set of transformation associated genes whose up-regulation has implications for understanding Src mediated transformation and strengthens the role of Src in the development and progression of human colon cancer. Supportive Supplemental Data can be viewed at http://pga.tigr.org/PGApubs.shtml.

Original language	English (US)
Pages (from-to)	7256-7265
Number of pages	10
Journal	Oncogene
Volume	21
Issue number	47
DOIs	https://doi.org/10.1038/sj.onc.1205900
State	Published - 2002

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Molecular Biology
Genetics
Cancer Research

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10.1038/sj.onc.1205900

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@article{d56a75d0952c4287b92482ef3f806f7a,

title = "Identification of Src transformation fingerprint in human colon cancer",

abstract = "We used a classical rodent model of transformation to understand the transcriptional processes, and hence the molecular and cellular events a given cell undergoes when progressing from a normal to a transformed phenotype. Src activation is evident in 80% of human colon cancer, yet the myriad of cellular processes effected at the level of gene expression has yet to be fully documented. We identified a Src 'transformation fingerprint' within the gene expression profiles of Src-transformed rat 3Y1 fibroblasts demonstrating a progression in transformation characteristics. To evaluate the role of this gene set in human cancer development and progression, we extracted the orthologous genes present on the Affymetrix Hu95A GeneChip{\texttrademark} (12k named genes) and compared expression profiles between the Src-induced rodent cell line model of transformation and staged colon tumors where Src is known to be activated. A similar gene expression pattern between the cell line model and staged colon tumors for components of the cell cycle, cytoskeletal associated proteins, transcription factors and lysosomal proteins suggests the need for co-regulation of several cellular processes in the progression of cancer. Genes not previously implicated in tumorigenesis were detected, as well as a set of 14 novel, highly conserved genes with here-to-fore unknown function. These studies define a set of transformation associated genes whose up-regulation has implications for understanding Src mediated transformation and strengthens the role of Src in the development and progression of human colon cancer. Supportive Supplemental Data can be viewed at http://pga.tigr.org/PGApubs.shtml.",

author = "Malek, {Renae L.} and Irby, {Rosalyn B.} and Guo, {Qingbin M.} and Kerry Lee and Sylvia Wong and Mei He and Jennifer Tsai and Bryan Frank and Liu, {Edison T.} and John Quackenbush and Richard Jove and Yeatman, {Timothy J.} and Lee, {Norman H.}",

note = "Funding Information: We would like to thank Terry Utterback and the TIGR Sequencing Core Facility for their excellent sequencing support and Michael Heaney for database support. We would also like to acknowledge the exceptional efforts of the TIGR Gene Indices Group as well as the TMEV software developers. We would like to thank Dr Alan Kraker for Pfizer Global Research for generously providing PG180970. This study was supported in part by a National Heart Lung and Blood Institute Grant (HL59781, NH Lee), the National Cancer Institute (CA85052-01-A1 and CA85429-01, TJ Yeatman; CA77049-02 and 6120-119-L0-A, J Quackenbush), the American Cancer Society (ACSRPG99-099-01-MGO, TJ Yeatman).",

year = "2002",

doi = "10.1038/sj.onc.1205900",

language = "English (US)",

volume = "21",

pages = "7256--7265",

journal = "Oncogene",

issn = "0950-9232",

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T1 - Identification of Src transformation fingerprint in human colon cancer

AU - Malek, Renae L.

AU - Irby, Rosalyn B.

AU - Guo, Qingbin M.

AU - Lee, Kerry

AU - Wong, Sylvia

AU - He, Mei

AU - Tsai, Jennifer

AU - Frank, Bryan

AU - Liu, Edison T.

AU - Quackenbush, John

AU - Jove, Richard

AU - Yeatman, Timothy J.

AU - Lee, Norman H.

N1 - Funding Information: We would like to thank Terry Utterback and the TIGR Sequencing Core Facility for their excellent sequencing support and Michael Heaney for database support. We would also like to acknowledge the exceptional efforts of the TIGR Gene Indices Group as well as the TMEV software developers. We would like to thank Dr Alan Kraker for Pfizer Global Research for generously providing PG180970. This study was supported in part by a National Heart Lung and Blood Institute Grant (HL59781, NH Lee), the National Cancer Institute (CA85052-01-A1 and CA85429-01, TJ Yeatman; CA77049-02 and 6120-119-L0-A, J Quackenbush), the American Cancer Society (ACSRPG99-099-01-MGO, TJ Yeatman).

PY - 2002

Y1 - 2002

N2 - We used a classical rodent model of transformation to understand the transcriptional processes, and hence the molecular and cellular events a given cell undergoes when progressing from a normal to a transformed phenotype. Src activation is evident in 80% of human colon cancer, yet the myriad of cellular processes effected at the level of gene expression has yet to be fully documented. We identified a Src 'transformation fingerprint' within the gene expression profiles of Src-transformed rat 3Y1 fibroblasts demonstrating a progression in transformation characteristics. To evaluate the role of this gene set in human cancer development and progression, we extracted the orthologous genes present on the Affymetrix Hu95A GeneChip™ (12k named genes) and compared expression profiles between the Src-induced rodent cell line model of transformation and staged colon tumors where Src is known to be activated. A similar gene expression pattern between the cell line model and staged colon tumors for components of the cell cycle, cytoskeletal associated proteins, transcription factors and lysosomal proteins suggests the need for co-regulation of several cellular processes in the progression of cancer. Genes not previously implicated in tumorigenesis were detected, as well as a set of 14 novel, highly conserved genes with here-to-fore unknown function. These studies define a set of transformation associated genes whose up-regulation has implications for understanding Src mediated transformation and strengthens the role of Src in the development and progression of human colon cancer. Supportive Supplemental Data can be viewed at http://pga.tigr.org/PGApubs.shtml.

AB - We used a classical rodent model of transformation to understand the transcriptional processes, and hence the molecular and cellular events a given cell undergoes when progressing from a normal to a transformed phenotype. Src activation is evident in 80% of human colon cancer, yet the myriad of cellular processes effected at the level of gene expression has yet to be fully documented. We identified a Src 'transformation fingerprint' within the gene expression profiles of Src-transformed rat 3Y1 fibroblasts demonstrating a progression in transformation characteristics. To evaluate the role of this gene set in human cancer development and progression, we extracted the orthologous genes present on the Affymetrix Hu95A GeneChip™ (12k named genes) and compared expression profiles between the Src-induced rodent cell line model of transformation and staged colon tumors where Src is known to be activated. A similar gene expression pattern between the cell line model and staged colon tumors for components of the cell cycle, cytoskeletal associated proteins, transcription factors and lysosomal proteins suggests the need for co-regulation of several cellular processes in the progression of cancer. Genes not previously implicated in tumorigenesis were detected, as well as a set of 14 novel, highly conserved genes with here-to-fore unknown function. These studies define a set of transformation associated genes whose up-regulation has implications for understanding Src mediated transformation and strengthens the role of Src in the development and progression of human colon cancer. Supportive Supplemental Data can be viewed at http://pga.tigr.org/PGApubs.shtml.

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Identification of Src transformation fingerprint in human colon cancer

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