| HOME | HELP | FEEDBACK | SUBSCRIPTIONS | ARCHIVE | SEARCH | TABLE OF CONTENTS |
|
|
|
|||||||
|
|||||||||
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Molecular & Cellular Proteomics 1:304-313, 2002.
© 2002 by The American Society for Biochemistry and Molecular Biology, Inc.
,
Department of Surgery, University of Michigan, Ann Arbor, Michigan 48109
Department of Biostatistics, University of Michigan, Ann Arbor, Michigan 48109
|| Department of Epidemiology, University of Michigan, Ann Arbor, Michigan 48109
** Department of Pathology,University of Michigan, Ann Arbor, Michigan 48109
¶ Department of Pediatrics, University of Michigan, Ann Arbor, Michigan 48109
The relationship between gene expression measured at the mRNA level and the corresponding protein level is not well characterized in human cancer. In this study, we compared mRNA and protein expression for a cohort of genes in the same lung adenocarcinomas. The abundance of 165 protein spots representing 98 individual genes was analyzed in 76 lung adenocarcinomas and nine non-neoplastic lung tissues using two-dimensional polyacrylamide gel electrophoresis. Specific polypeptides were identified using matrix-assisted laser desorption/ionization mass spectrometry. For the same 85 samples, mRNA levels were determined using oligonucleotide microarrays, allowing a comparative analysis of mRNA and protein expression among the 165 protein spots. Twenty-eight of the 165 protein spots (17%) or 21 of 98 genes (21.4%) had a statistically significant correlation between protein and mRNA expression (r > 0.2445; p < 0.05); however, among all 165 proteins the correlation coefficient values (r) ranged from -0.467 to 0.442. Correlation coefficient values were not related to protein abundance. Further, no significant correlation between mRNA and protein expression was found (r = -0.025) if the average levels of mRNA or protein among all samples were applied across the 165 protein spots (98 genes). The mRNA/protein correlation coefficient also varied among proteins with multiple isoforms, indicating potentially separate isoform-specific mechanisms for the regulation of protein abundance. Among the 21 genes with a significant correlation between mRNA and protein, five genes differed significantly between stage I and stage III lung adenocarcinomas. Using a quantitative analysis of mRNA and protein expression within the same lung adenocarcinomas, we showed that only a subset of the proteins exhibited a significant correlation with mRNA abundance.
To whom correspondence should be addressed: General Thoracic Surgery, SRB II, B560, Box 0686, University of Michigan Medical School, Ann Arbor, MI 48109-086; E-mail: dgbeer{at}umich.edu
CiteULike 
Complore 
Connotea 
Del.icio.us 
Digg 
Reddit 
Technorati What's this?
This article has been cited by other articles:
|
|
 |
|
  H. Lu, Y. Yang, E. M. Allister, N. Wijesekara, and M. B. Wheeler The Identification of Potential Factors Associated with the Development of Type 2 Diabetes: A Quantitative Proteomics Approach Mol. Cell. Proteomics, August 1, 2008; 7(8): 1434 - 1451. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 Q. Hou, Y. H. Wu, H. Grabsch, Y. Zhu, S. H. Leong, K. Ganesan, D. Cross, L. K. Tan, J. Tao, V. Gopalakrishnan, et al. Integrative Genomics Identifies RAB23 as an Invasion Mediator Gene in Diffuse-Type Gastric Cancer Cancer Res., June 15, 2008; 68(12): 4623 - 4630. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 B. Lin, A. G. Utleg, K. Gravdal, J. T. White, O. J. Halvorsen, W. Lu, L. D. True, R. Vessella, P. H. Lange, P. S. Nelson, et al. WDR19 Expression is Increased in Prostate Cancer Compared with Normal Cells, but Low-Intensity Expression in Cancers is Associated with Shorter Time to Biochemical Failures and Local Recurrence Clin. Cancer Res., March 1, 2008; 14(5): 1397 - 1406. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. L. Slongo, B. Molena, A. M. Brunati, M. Frasson, M. Gardiman, M. Carli, G. Perilongo, A. Rosolen, and M. Onisto Functional VEGF and VEGF receptors are expressed in human medulloblastomas Neuro-oncol, October 1, 2007; 9(4): 384 - 392. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
L. Wu, S.-I. Hwang, K. Rezaul, L. J. Lu, V. Mayya, M. Gerstein, J. K. Eng, D. H. Lundgren, and D. K. Han Global Survey of Human T Leukemic Cells by Integrating Proteomics and Transcriptomics Profiling Mol. Cell. Proteomics, August 1, 2007; 6(8): 1343 - 1353. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 Q. Luo, L. Siconolfi-Baez, P. Annamaneni, M. T. Bielawski, P. M. Novikoff, and R. H. Angeletti Altered protein expression at early-stage rat hepatic neoplasia Am J Physiol Gastrointest Liver Physiol, May 1, 2007; 292(5): G1272 - G1282. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
E. Hatjiharissi, H. Ngo, A. A. Leontovich, X. Leleu, M. Timm, M. Melhem, D. George, G. Lu, J. Ghobrial, Y. Alsayed, et al. Proteomic Analysis of Waldenstrom Macroglobulinemia Cancer Res., April 15, 2007; 67(8): 3777 - 3784. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
G. Chen, X. Wang, J. Yu, S. Varambally, J. Yu, D. G. Thomas, M.-Y. Lin, P. Vishnu, Z. Wang, R. Wang, et al. Autoantibody Profiles Reveal Ubiquilin 1 as a Humoral Immune Response Target in Lung Adenocarcinoma Cancer Res., April 1, 2007; 67(7): 3461 - 3467. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. J. Lengi, R. A. Phillips, E. Karpuzoglu, and S. A. Ahmed Estrogen selectively regulates chemokines in murine splenocytes J. Leukoc. Biol., April 1, 2007; 81(4): 1065 - 1074. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 U. T. Shankavaram, W. C. Reinhold, S. Nishizuka, S. Major, D. Morita, K. K. Chary, M. A. Reimers, U. Scherf, A. Kahn, D. Dolginow, et al. Transcript and protein expression profiles of the NCI-60 cancer cell panel: an integromic microarray study Mol. Cancer Ther., March 1, 2007; 6(3): 820 - 832. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 B. G. Helwig, T. I. Musch, R. A. Craig, and M. J. Kenney Increased interleukin-6 receptor expression in the paraventricular nucleus of rats with heart failure Am J Physiol Regulatory Integrative Comp Physiol, March 1, 2007; 292(3): R1165 - R1173. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 I. M. Frey, I. Rubio-Aliaga, A. Siewert, D. Sailer, A. Drobyshev, J. Beckers, M. H. de Angelis, J. Aubert, A. B. Hen, O. Fiehn, et al. Profiling at mRNA, protein, and metabolite levels reveals alterations in renal amino acid handling and glutathione metabolism in kidney tissue of Pept2-/- mice Physiol Genomics, February 12, 2007; 28(3): 301 - 310. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
C. C. Whiteford, S. Bilke, B. T. Greer, Q. Chen, T. A. Braunschweig, N. Cenacchi, J. S. Wei, M. A. Smith, P. Houghton, C. Morton, et al. Credentialing Preclinical Pediatric Xenograft Models Using Gene Expression and Tissue Microarray Analysis Cancer Res., January 1, 2007; 67(1): 32 - 40. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Zvonic, M. Lefevre, G. Kilroy, Z. E. Floyd, J. P. DeLany, I. Kheterpal, A. Gravois, R. Dow, A. White, X. Wu, et al. Secretome of Primary Cultures of Human Adipose-derived Stem Cells: Modulation of Serpins by Adipogenesis Mol. Cell. Proteomics, January 1, 2007; 6(1): 18 - 28. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 K. M. Waters, J. G. Pounds, and B. D. Thrall Data merging for integrated microarray and proteomic analysis Brief Funct Genomic Proteomic, December 1, 2006; 5(4): 261 - 272. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 T. Baas, C. R. Baskin, D. L. Diamond, A. Garcia-Sastre, H. Bielefeldt-Ohmann, T. M. Tumpey, M. J. Thomas, V. S. Carter, T. H. Teal, N. Van Hoeven, et al. Integrated Molecular Signature of Disease: Analysis of Influenza Virus-Infected Macaques through Functional Genomics and Proteomics J. Virol., November 1, 2006; 80(21): 10813 - 10828. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Cui, S.-Y. Han, C. Wang, W. Su, L. Harshyne, M. Holgado-Madruga, and A. J. Wong c-Jun NH2-Terminal Kinase 2{alpha}2 Promotes the Tumorigenicity of Human Glioblastoma Cells. Cancer Res., October 15, 2006; 66(20): 10024 - 10031. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 L. Puricelli, E. Iori, R. Millioni, G. Arrigoni, P. James, M. Vedovato, and P. Tessari Proteome Analysis of Cultured Fibroblasts from Type 1 Diabetic Patients and Normal Subjects J. Clin. Endocrinol. Metab., September 1, 2006; 91(9): 3507 - 3514. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 C.-W. Lee, R. Rivera, S. Gardell, A. E. Dubin, and J. Chun GPR92 as a New G12/13- and Gq-coupled Lysophosphatidic Acid Receptor That Increases cAMP, LPA5 J. Biol. Chem., August 18, 2006; 281(33): 23589 - 23597. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. Provenzani, R. Fronza, F. Loreni, A. Pascale, M. Amadio, and A. Quattrone Global alterations in mRNA polysomal recruitment in a cell model of colorectal cancer progression to metastasis Carcinogenesis, July 1, 2006; 27(7): 1323 - 1333. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. Jaleel, V. Nehra, X.-M. T. Persson, Y. Boirie, M. Bigelow, and K. S. Nair In vivo measurement of synthesis rate of multiple plasma proteins in humans Am J Physiol Endocrinol Metab, July 1, 2006; 291(1): E190 - E197. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B. S. Taylor, S. Varambally, and A. M. Chinnaiyan A Systems Approach to Model Metastatic Progression Cancer Res., June 1, 2006; 66(11): 5537 - 5539. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S.-P. Yan, Q.-Y. Zhang, Z.-C. Tang, W.-A. Su, and W.-N. Sun Comparative Proteomic Analysis Provides New Insights into Chilling Stress Responses in Rice Mol. Cell. Proteomics, March 1, 2006; 5(3): 484 - 496. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Gronborg, T. Z. Kristiansen, A. Iwahori, R. Chang, R. Reddy, N. Sato, H. Molina, O. N. Jensen, R. H. Hruban, M. G. Goggins, et al. Biomarker Discovery from Pancreatic Cancer Secretome Using a Differential Proteomic Approach Mol. Cell. Proteomics, January 1, 2006; 5(1): 157 - 171. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 O. Hansson, M. Donsmark, C. Ling, P. Nevsten, M. Danfelter, J. L. Andersen, H. Galbo, and C. Holm Transcriptome and proteome analysis of soleus muscle of hormone-sensitive lipase-null mice J. Lipid Res., December 1, 2005; 46(12): 2614 - 2623. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 N. M. Lewandowski and S. A. Small Brain Microarray: Finding Needles in Molecular Haystacks J. Neurosci., November 9, 2005; 25(45): 10341 - 10346. [Full Text] [PDF]
|
|
|
|
|
|
A. I. Nesvizhskii and R. Aebersold Interpretation of Shotgun Proteomic Data: The Protein Inference Problem Mol. Cell. Proteomics, October 1, 2005; 4(10): 1419 - 1440. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. A. Alterman, B. Kornilayev, T. Duzhak, and D. Yakovlev QUANTITATIVE ANALYSIS OF CYTOCHROME P450 ISOZYMES BY MEANS OF UNIQUE ISOZYME-SPECIFIC TRYPTIC PEPTIDES: A PROTEOMIC APPROACH Drug Metab. Dispos., September 1, 2005; 33(9): 1399 - 1407. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. A. Conrads, M. Yi, K. A. Simpson, D. A. Lucas, C. E. Camalier, L.-R. Yu, T. D. Veenstra, R. M. Stephens, T. P. Conrads, and G. R. Beck Jr. A Combined Proteome and Microarray Investigation of Inorganic Phosphate-induced Pre-osteoblast Cells Mol. Cell. Proteomics, September 1, 2005; 4(9): 1284 - 1296. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 G. Chen, M. S. Bhojani, A. C. Heaford, D. C. Chang, B. Laxman, D. G. Thomas, L. B. Griffin, J. Yu, J. M. Coppola, T. J. Giordano, et al. Phosphorylated FADD induces NF-{kappa}B, perturbs cell cycle, and is associated with poor outcome in lung adenocarcinomas PNAS, August 30, 2005; 102(35): 12507 - 12512. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. A. Jolly, K. M. Goldstein, T. Wei, H. Gao, P. Chen, S. Huang, J.-M. Colet, T. P. Ryan, C. E. Thomas, and S. T. Estrem Pooling samples within microarray studies: a comparative analysis of rat liver transcription response to prototypical toxicants Physiol Genomics, August 11, 2005; 22(3): 346 - 355. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 M. Meyerson and D. Carbone Genomic and Proteomic Profiling of Lung Cancers: Lung Cancer Classification in the Age of Targeted Therapy J. Clin. Oncol., May 10, 2005; 23(14): 3219 - 3226. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 I. M. Ghobrial, D. J. McCormick, S. H. Kaufmann, A. A. Leontovich, D. A. Loegering, N. T. Dai, K. L. Krajnik, M. J. Stenson, M. F. Melhem, A. J. Novak, et al. Proteomic analysis of mantle-cell lymphoma by protein microarray Blood, May 1, 2005; 105(9): 3722 - 3730. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. E. Eckel-Passow, A. Hoering, T. M. Therneau, and I. Ghobrial Experimental Design and Analysis of Antibody Microarrays: Applying Methods from cDNA Arrays Cancer Res., April 15, 2005; 65(8): 2985 - 2989. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
B. Lin, J. T. White, W. Lu, T. Xie, A. G. Utleg, X. Yan, E. C. Yi, P. Shannon, I. Khrebtukova, P. H. Lange, et al. Evidence for the Presence of Disease-Perturbed Networks in Prostate Cancer Cells by Genomic and Proteomic Analyses: A Systems Approach to Disease Cancer Res., April 15, 2005; 65(8): 3081 - 3091. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
T. Sparre, M. R. Larsen, P. E. Heding, A. E. Karlsen, O. N. Jensen, and F. Pociot Unraveling the Pathogenesis of Type 1 Diabetes with Proteomics: Present And Future Directions Mol. Cell. Proteomics, April 1, 2005; 4(4): 441 - 457. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
K. Kamath, L. Wilson, F. Cabral, and M. A. Jordan {beta}III-Tubulin Induces Paclitaxel Resistance in Association with Reduced Effects on Microtubule Dynamic Instability J. Biol. Chem., April 1, 2005; 280(13): 12902 - 12907. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 R. Amanchy, D. E. Kalume, and A. Pandey Stable Isotope Labeling with Amino Acids in Cell Culture (SILAC) for Studying Dynamics of Protein Abundance and Posttranslational Modifications Sci. Signal., January 18, 2005; 2005(267): pl2 - pl2. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 C. W. Strey, D. Spellman, A. Stieber, J. O. Gonatas, X. Wang, J. D. Lambris, and N. K. Gonatas Dysregulation of Stathmin, a Microtubule-Destabilizing Protein, and Up-Regulation of Hsp25, Hsp27, and the Antioxidant Peroxiredoxin 6 in a Mouse Model of Familial Amyotrophic Lateral Sclerosis Am. J. Pathol., November 1, 2004; 165(5): 1701 - 1718. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Y. Chen, G. Shi, W. Xia, C. Kong, S. Zhao, A. F. Gaw, E. Y. Chen, G. P. Yang, A. J. Giaccia, Q.-T. Le, et al. Identification of Hypoxia-Regulated Proteins in Head and Neck Cancer by Proteomic and Tissue Array Profiling Cancer Res., October 15, 2004; 64(20): 7302 - 7310. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
P. A. Svingen, D. Loegering, J. Rodriquez, X. W. Meng, P. W. Mesner Jr., S. Holbeck, A. Monks, S. Krajewski, D. A. Scudiero, E. A. Sausville, et al. Components of the Cell Death Machine and Drug Sensitivity of the National Cancer Institute Cell Line Panel Clin. Cancer Res., October 15, 2004; 10(20): 6807 - 6820. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
Q. Tian, S. B. Stepaniants, M. Mao, L. Weng, M. C. Feetham, M. J. Doyle, E. C. Yi, H. Dai, V. Thorsson, J. Eng, et al. Integrated Genomic and Proteomic Analyses of Gene Expression in Mammalian Cells Mol. Cell. Proteomics, October 1, 2004; 3(10): 960 - 969. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Gu, Z. Liu, S. Pan, Z. Jiang, H. Lu, O. Amit, E. M. Bradbury, C.-A. A. Hu, and X. Chen Global Investigation of p53-induced Apoptosis Through Quantitative Proteomic Profiling Using Comparative Amino Acid-coded Tagging Mol. Cell. Proteomics, October 1, 2004; 3(10): 998 - 1008. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. M. Cuezva, G. Chen, A. M. Alonso, A. Isidoro, D. E. Misek, S. M. Hanash, and D. G. Beer The bioenergetic signature of lung adenocarcinomas is a molecular marker of cancer diagnosis and prognosis Carcinogenesis, July 1, 2004; 25(7): 1157 - 1163. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
W. Bae and X. Chen Proteomic Study for the Cellular Responses to Cd2+ in Schizosaccharomyces pombe Through Amino Acid-coded Mass Tagging and Liquid Chromatography Tandem Mass Spectrometry Mol. Cell. Proteomics, June 1, 2004; 3(6): 596 - 607. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
R. D. Petty, M. C. Nicolson, K. M. Kerr, E. Collie-Duguid, and G. I. Murray Gene Expression Profiling in Non-Small Cell Lung Cancer: From Molecular Mechanisms to Clinical Application Clin. Cancer Res., May 15, 2004; 10(10): 3237 - 3248. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
S. Nisar, C. S. Lane, A. F. Wilderspin, K. J. Welham, W. J. Griffiths, and L. H. Patterson A PROTEOMIC APPROACH TO THE IDENTIFICATION OF CYTOCHROME P450 ISOFORMS IN MALE AND FEMALE RAT LIVER BY NANOSCALE LIQUID CHROMATOGRAPHY-ELECTROSPRAY IONIZATION-TANDEM MASS SPECTROMETRY Drug Metab. Dispos., April 1, 2004; 32(4): 382 - 386. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. P. McRedmond, S. D. Park, D. F. Reilly, J. A. Coppinger, P. B. Maguire, D. C. Shields, and D. J. Fitzgerald Integration of Proteomics and Genomics in Platelets: A PROFILE OF PLATELET PROTEINS AND PLATELET-SPECIFIC GENES Mol. Cell. Proteomics, February 1, 2004; 3(2): 133 - 144. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 A. M. Wheelock, L. Zhang, M.-U. Tran, D. Morin, S. Penn, A. R. Buckpitt, and C. G. Plopper Isolation of rodent airway epithelial cell proteins facilitates in vivo proteomics studies of lung toxicity Am J Physiol Lung Cell Mol Physiol, February 1, 2004; 286(2): L399 - L410. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
M. Huber, I. Bahr, J. R. Kratzschmar, A. Becker, E.-C. Muller, P. Donner, H.-D. Pohlenz, M. R. Schneider, and A. Sommer Comparison of Proteomic and Genomic Analyses of the Human Breast Cancer Cell Line T47D and the Antiestrogen-resistant Derivative T47D-r Mol. Cell. Proteomics, January 1, 2004; 3(1): 43 - 55. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
G. Chen, T. G Gharib, H. Wang, C.-C. Huang, R. Kuick, D. G. Thomas, K. A. Shedden, D. E. Misek, J. M. G. Taylor, T. J. Giordano, et al. Protein profiles associated with survival in lung adenocarcinoma PNAS, November 11, 2003; 100(23): 13537 - 13542. [Abstract] [Full Text] [PDF]
|
|
|
|
|
|
J. Li, H. Steen, and S. P. Gygi Protein Profiling with Cleavable Isotope-coded Affinity Tag (cICAT) Reagents: The Yeast Salinity Stress Response Mol. Cell. Proteomics, November 1, 2003; 2(11): 1198 - 1204. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 N. Guerreiro, F. Staedtler, O. Grenet, J. Kehren, and S.-D. Chibout Toxicogenomics in |
