Integrated genomic and proteomic analyses of gene expression in mammalian cells

Qiang Tian; Serguei B. Stepaniants; Mao Mao; Lee Weng; Megan C. Feetham; Michelle J. Doyle; Eugene C. Yi; Hongyue Dai; Vesteinn Thorsson; Jimmy Eng; David Goodlett; Joel P. Berger; Bert Gunter; Peter S. Linseley; Roland B. Stoughton; Ruedi Aebersold; Steven J. Collins; William A. Hanlon; Leroy E. Hood

doi:10.1074/mcp.M400055-MCP200

Integrated genomic and proteomic analyses of gene expression in mammalian cells

Qiang Tian, Serguei B. Stepaniants, Mao Mao, Lee Weng, Megan C. Feetham, Michelle J. Doyle, Eugene C. Yi, Hongyue Dai, Vesteinn Thorsson, Jimmy Eng, David Goodlett, Joel P. Berger, Bert Gunter, Peter S. Linseley, Roland B. Stoughton, Ruedi Aebersold, Steven J. Collins, William A. Hanlon, Leroy E. Hood

Medicine - Cardiology Division

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

664 Scopus citations

Abstract

Using DNA microarrays together with quantitative proteomic techniques (ICAT reagents, two-dimensional DIGE, and MS), we evaluated the correlation of mRNA and protein levels in two hematopoietic cell lines representing distinct stages of myeloid differentiation, as well as in the livers of mice treated for different periods of time with three different peroxisome proliferative activated receptor agonists. We observe that the differential expression of mRNA (up or down) can capture at most 40% of the variation of protein expression. Although the overall pattern of protein expression is similar to that of mRNA expression, the incongruent expression between mRNAs and proteins emphasize the importance of posttranscriptional regulatory mechanisms in cellular development or perturbation that can be unveiled only through integrated analyses of both proteins and mRNAs.

Original language	English (US)
Pages (from-to)	960-969
Number of pages	10
Journal	Molecular and Cellular Proteomics
Volume	3
Issue number	10
DOIs	https://doi.org/10.1074/mcp.M400055-MCP200
State	Published - Oct 2004

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

Access

10.1074/mcp.M400055-MCP200

OpenUrl availability

Full text

Cite this

Tian, Q., Stepaniants, S. B., Mao, M., Weng, L., Feetham, M. C., Doyle, M. J., Yi, E. C., Dai, H., Thorsson, V., Eng, J., Goodlett, D., Berger, J. P., Gunter, B., Linseley, P. S., Stoughton, R. B., Aebersold, R., Collins, S. J., Hanlon, W. A., & Hood, L. E. (2004). Integrated genomic and proteomic analyses of gene expression in mammalian cells. Molecular and Cellular Proteomics, 3(10), 960-969. https://doi.org/10.1074/mcp.M400055-MCP200

Tian, Q, Stepaniants, SB, Mao, M, Weng, L, Feetham, MC, Doyle, MJ, Yi, EC, Dai, H, Thorsson, V, Eng, J, Goodlett, D, Berger, JP, Gunter, B, Linseley, PS, Stoughton, RB, Aebersold, R, Collins, SJ, Hanlon, WA & Hood, LE 2004, 'Integrated genomic and proteomic analyses of gene expression in mammalian cells', Molecular and Cellular Proteomics, vol. 3, no. 10, pp. 960-969. https://doi.org/10.1074/mcp.M400055-MCP200

@article{4ec9f9610afb489599e29ecb5ebfeeb1,

title = "Integrated genomic and proteomic analyses of gene expression in mammalian cells",

abstract = "Using DNA microarrays together with quantitative proteomic techniques (ICAT reagents, two-dimensional DIGE, and MS), we evaluated the correlation of mRNA and protein levels in two hematopoietic cell lines representing distinct stages of myeloid differentiation, as well as in the livers of mice treated for different periods of time with three different peroxisome proliferative activated receptor agonists. We observe that the differential expression of mRNA (up or down) can capture at most 40% of the variation of protein expression. Although the overall pattern of protein expression is similar to that of mRNA expression, the incongruent expression between mRNAs and proteins emphasize the importance of posttranscriptional regulatory mechanisms in cellular development or perturbation that can be unveiled only through integrated analyses of both proteins and mRNAs.",

author = "Qiang Tian and Stepaniants, {Serguei B.} and Mao Mao and Lee Weng and Feetham, {Megan C.} and Doyle, {Michelle J.} and Yi, {Eugene C.} and Hongyue Dai and Vesteinn Thorsson and Jimmy Eng and David Goodlett and Berger, {Joel P.} and Bert Gunter and Linseley, {Peter S.} and Stoughton, {Roland B.} and Ruedi Aebersold and Collins, {Steven J.} and Hanlon, {William A.} and Hood, {Leroy E.}",

year = "2004",

month = oct,

doi = "10.1074/mcp.M400055-MCP200",

language = "English (US)",

volume = "3",

pages = "960--969",

journal = "Molecular and Cellular Proteomics",

issn = "1535-9476",

publisher = "American Society for Biochemistry and Molecular Biology Inc.",

number = "10",

}

TY - JOUR

T1 - Integrated genomic and proteomic analyses of gene expression in mammalian cells

AU - Tian, Qiang

AU - Stepaniants, Serguei B.

AU - Mao, Mao

AU - Weng, Lee

AU - Feetham, Megan C.

AU - Doyle, Michelle J.

AU - Yi, Eugene C.

AU - Dai, Hongyue

AU - Thorsson, Vesteinn

AU - Eng, Jimmy

AU - Goodlett, David

AU - Berger, Joel P.

AU - Gunter, Bert

AU - Linseley, Peter S.

AU - Stoughton, Roland B.

AU - Aebersold, Ruedi

AU - Collins, Steven J.

AU - Hanlon, William A.

AU - Hood, Leroy E.

PY - 2004/10

Y1 - 2004/10

N2 - Using DNA microarrays together with quantitative proteomic techniques (ICAT reagents, two-dimensional DIGE, and MS), we evaluated the correlation of mRNA and protein levels in two hematopoietic cell lines representing distinct stages of myeloid differentiation, as well as in the livers of mice treated for different periods of time with three different peroxisome proliferative activated receptor agonists. We observe that the differential expression of mRNA (up or down) can capture at most 40% of the variation of protein expression. Although the overall pattern of protein expression is similar to that of mRNA expression, the incongruent expression between mRNAs and proteins emphasize the importance of posttranscriptional regulatory mechanisms in cellular development or perturbation that can be unveiled only through integrated analyses of both proteins and mRNAs.

AB - Using DNA microarrays together with quantitative proteomic techniques (ICAT reagents, two-dimensional DIGE, and MS), we evaluated the correlation of mRNA and protein levels in two hematopoietic cell lines representing distinct stages of myeloid differentiation, as well as in the livers of mice treated for different periods of time with three different peroxisome proliferative activated receptor agonists. We observe that the differential expression of mRNA (up or down) can capture at most 40% of the variation of protein expression. Although the overall pattern of protein expression is similar to that of mRNA expression, the incongruent expression between mRNAs and proteins emphasize the importance of posttranscriptional regulatory mechanisms in cellular development or perturbation that can be unveiled only through integrated analyses of both proteins and mRNAs.

UR - http://www.scopus.com/inward/record.url?scp=20144368638&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=20144368638&partnerID=8YFLogxK

U2 - 10.1074/mcp.M400055-MCP200

DO - 10.1074/mcp.M400055-MCP200

M3 - Article

C2 - 15238602

AN - SCOPUS:20144368638

SN - 1535-9476

VL - 3

SP - 960

EP - 969

JO - Molecular and Cellular Proteomics

JF - Molecular and Cellular Proteomics

IS - 10

ER -

Integrated genomic and proteomic analyses of gene expression in mammalian cells

Abstract

UN SDGs

Access

OpenUrl availability

Other files and links

Fingerprint

Cite this