This Article Full Text Full Text (PDF) Supplemental Research Data Alert me when this article is cited Alert me if a correction is posted Citation Map Services Email this article to a friend Similar articles in this journal Similar articles in PubMed Alert me to new issues of the journal Download to citation manager Citing Articles Citing Articles via HighWire Citing Articles via Google Scholar Google Scholar Articles by Akilesh, S. Articles by Roopenian, D. Search for Related Content PubMed PubMed Citation Articles by Akilesh, S. Articles by Roopenian, D. Social Bookmarking                   What's this?

Methods

Customized Molecular Phenotyping by Quantitative Gene Expression and Pattern Recognition Analysis

The Jackson Laboratory, Bar Harbor, Maine 04609, USA

Description of the molecular phenotypes of pathobiological processes in vivo is a pressing need in genomic biology. We have implemented a high-throughput real-time PCR strategy to establish quantitative expression profiles of a customized set of target genes. It enables rapid, reproducible data acquisition from limited quantities of RNA, permitting serial sampling of mouse blood during disease progression. We developed an easy to use statistical algorithm—Global Pattern Recognition—to readily identify genes whose expression has changed significantly from healthy baseline profiles. This approach provides unique molecular signatures for rheumatoid arthritis, systemic lupus erythematosus, and graft versus host disease, and can also be applied to defining the molecular phenotype of a variety of other normal and pathological processes.

View this table: [in this window] [in a new window]   Table 1. Genes Included in the ImmunoQuantArray

¹ Corresponding author.
E-MAIL dcr{at}jax.org; FAX (207) 288-6383.

[Supplemental material—The primer sequences for genes included in the ImmunoQuant Array (and listed in Table 1) are available online at www.genome.org. The GPR algorithm, documentation, and sample data sets are available at http://www.jax.org/staff/roopenian/labsite/index.html.The following individuals kindly provided reagents, samples, or unpublished information as indicated in the paper: D. Mathis and C. Benoist.]

CiteULike    Connotea    Del.icio.us    Digg    Reddit    Technorati    What's this?

This article has been cited by other articles:

				D. V. Serreze, C. M. Choisy-Rossi, A. E. Grier, T. M. Holl, H. D. Chapman, J. R. Gahagan, M. A. Osborne, W. Zhang, B. L. King, A. Brown, et al. Through Regulation of TCR Expression Levels, an Idd7 Region Gene(s) Interactively Contributes to the Impaired Thymic Deletion of Autoreactive Diabetogenic CD8+ T Cells in Nonobese Diabetic Mice J. Immunol., March 1, 2008; 180(5): 3250 - 3259. [Abstract] [Full Text] [PDF]

				G. J. Bouma, L. L. Washburn, K. H. Albrecht, and E. M. Eicher Correct dosage of Fog2 and Gata4 transcription factors is critical for fetal testis development in mice PNAS, September 18, 2007; 104(38): 14994 - 14999. [Abstract] [Full Text] [PDF]

				J.A. BUBIER, S.M. BENNETT, T.J. SPROULE, B.L. LYONS, S. OLLAND, D.A. YOUNG, and D.C. ROOPENIAN Treatment of BXSB-Yaa Mice with IL-21R-Fc Fusion Protein Minimally Attenuates Systemic Lupus Erythematosus Ann. N.Y. Acad. Sci., September 1, 2007; 1110(1): 590 - 601. [Abstract] [Full Text] [PDF]

				B. Lecka-Czernik, C. Ackert-Bicknell, M. L. Adamo, V. Marmolejos, G. A. Churchill, K. R. Shockley, I. R. Reid, A. Grey, and C. J. Rosen Activation of Peroxisome Proliferator-Activated Receptor {gamma} (PPAR{gamma}) by Rosiglitazone Suppresses Components of the Insulin-Like Growth Factor Regulatory System in Vitro and in Vivo Endocrinology, February 1, 2007; 148(2): 903 - 911. [Abstract] [Full Text] [PDF]

				K. M. Delahunty, K. L. Shultz, G. A. Gronowicz, B. Koczon-Jaremko, M. L. Adamo, L. G. Horton, J. Lorenzo, L. R. Donahue, C. Ackert-Bicknell, B. E. Kream, et al. Congenic Mice Provide in Vivo Evidence for a Genetic Locus that Modulates Serum Insulin-Like Growth Factor-I and Bone Acquisition Endocrinology, August 1, 2006; 147(8): 3915 - 3923. [Abstract] [Full Text] [PDF]

				Y.-T.A. Teng Protective and Destructive Immunity in the Periodontium: Part 2--T-cell-mediated Immunity in the Periodontium. J. Dent. Res., March 1, 2006; 85(3): 209 - 219. [Abstract] [Full Text] [PDF]

				M. Ueno, B. L. Lyons, L. M. Burzenski, B. Gott, D. J. Shaffer, D. C. Roopenian, and L. D. Shultz Accelerated Wound Healing of Alkali-Burned Corneas in MRL Mice Is Associated with a Reduced Inflammatory Signature Invest. Ophthalmol. Vis. Sci., November 1, 2005; 46(11): 4097 - 4106. [Abstract] [Full Text] [PDF]

				T. Burns, M. Abadi, and L.-a. Pirofski Modulation of the Lung Inflammatory Response to Serotype 8 Pneumococcal Infection by a Human Immunoglobulin M Monoclonal Antibody to Serotype 8 Capsular Polysaccharide Infect. Immun., August 1, 2005; 73(8): 4530 - 4538. [Abstract] [Full Text] [PDF]

				G. J. Bouma, K. H. Albrecht, L. L. Washburn, A. K. Recknagel, G. A. Churchill, and E. M. Eicher Gonadal sex reversal in mutant Dax1 XY mice: a failure to upregulate Sox9 in pre-Sertoli cells Development, July 1, 2005; 132(13): 3045 - 3054. [Abstract] [Full Text] [PDF]

				S A Bustin, V Benes, T Nolan, and M W Pfaffl Quantitative real-time RT-PCR - a perspective J. Mol. Endocrinol., June 1, 2005; 34(3): 597 - 601. [Abstract] [Full Text] [PDF]

				Y.-G. Chen, C.-M. Choisy-Rossi, T. M. Holl, H. D. Chapman, G. S. Besra, S. A. Porcelli, D. J. Shaffer, D. Roopenian, S. B. Wilson, and D. V. Serreze Activated NKT Cells Inhibit Autoimmune Diabetes through Tolerogenic Recruitment of Dendritic Cells to Pancreatic Lymph Nodes J. Immunol., February 1, 2005; 174(3): 1196 - 1204. [Abstract] [Full Text] [PDF]

				K. Ozaki, R. Spolski, R. Ettinger, H.-P. Kim, G. Wang, C.-F. Qi, P. Hwu, D. J. Shaffer, S. Akilesh, D. C. Roopenian, et al. Regulation of B Cell Differentiation and Plasma Cell Generation by IL-21, a Novel Inducer of Blimp-1 and Bcl-6 J. Immunol., November 1, 2004; 173(9): 5361 - 5371. [Abstract] [Full Text] [PDF]

				G. T. Hart, D. J. Shaffer, S. Akilesh, A. C. Brown, L. Moran, D. C. Roopenian, and P. J. Baker Quantitative Gene Expression Profiling Implicates Genes for Susceptibility and Resistance to Alveolar Bone Loss Infect. Immun., August 1, 2004; 72(8): 4471 - 4479. [Abstract] [Full Text] [PDF]