2003 |
Mahadeo A. Sukhai Rashmi S. Goswami, Mariam Thomas Use of Microarray Technology for Determining Gene Expression Signatures for Different Disease States: Journal Article In: 2003. @article{nokey, |
2002 |
Airey, David C; Lu, Lu; Shou, Siming; Williams, Robert W Genetic sources of individual differences in the cerebellum Journal Article In: Cerebellum, vol. 1, no. 4, pp. 233–240, 2002, ISSN: 1473-4222. @article{pmid12879962,The highly regular anatomy of the cerebellum that results from myriad genetic, environmental, and stochastic events during pre- and postnatal development is nonetheless quantitatively very different among individuals. Understanding the sources of these individual differences represents an immense challenge to those interested in the cerebellum. Here we highlight the use of new methods to dissect individual differences to their genetic sources by reviewing quantitative trait locus mapping efforts in the mouse model system. We further suggest and illustrate how to combine these methods with other modern genetic techniques to accelerate our understanding. Finally, we embed these methods in a hypothetical line of cerebellar research to illustrate the vast potential of combining complex trait analysis with a systems neuroscience perspective. |
Lang, Roland; Patel, Divyen; Morris, John J; Rutschman, Robert L; Murray, Peter J Shaping gene expression in activated and resting primary macrophages by IL-10 Journal Article In: J Immunol, vol. 169, no. 5, pp. 2253–2263, 2002, ISSN: 0022-1767. @article{pmid12193690,IL-10 regulates inflammation by reducing cytokine and chemokine production from activated macrophages. We performed microarray experiments to identify possible effector molecules of IL-10 and to investigate the global effect of IL-10 on the transcriptional response induced in LPS-activated macrophages. To exclude background effects of endogenous IL-10, macrophages from IL-10-deficient mice were used. IL-10 up-regulated expression of a small number of genes (26 and 37 after 45 min and 3 h, respectively), including newly identified and previously documented targets such as suppressor of cytokine signaling-3 and IL-1 receptor antagonist. However, the activation program triggered by LPS was profoundly affected by IL-10. IL-10 repressed 62 and further increased 15 of 259 LPS-induced genes. For all genes examined, the effects of IL-10 were determined to be STAT3-dependent. These results suggest that IL-10 regulates STAT3-dependent pathways that selectively target a broad component of LPS-induced genes at the mRNA level. |
Yeoh, Eng-Juh; Ross, Mary E; Shurtleff, Sheila A; Williams, W Kent; Patel, Divyen; Mahfouz, Rami; Behm, Fred G; Raimondi, Susana C; Relling, Mary V; Patel, Anami; Cheng, Cheng; Campana, Dario; Wilkins, Dawn; Zhou, Xiaodong; Li, Jinyan; Liu, Huiqing; Pui, Ching-Hon; Evans, William E; Naeve, Clayton; Wong, Limsoon; Downing, James R Classification, subtype discovery, and prediction of outcome in pediatric acute lymphoblastic leukemia by gene expression profiling Journal Article In: Cancer Cell, vol. 1, no. 2, pp. 133–143, 2002, ISSN: 1535-6108. @article{pmid12086872,Treatment of pediatric acute lymphoblastic leukemia (ALL) is based on the concept of tailoring the intensity of therapy to a patient's risk of relapse. To determine whether gene expression profiling could enhance risk assignment, we used oligonucleotide microarrays to analyze the pattern of genes expressed in leukemic blasts from 360 pediatric ALL patients. Distinct expression profiles identified each of the prognostically important leukemia subtypes, including T-ALL, E2A-PBX1, BCR-ABL, TEL-AML1, MLL rearrangement, and hyperdiploid >50 chromosomes. In addition, another ALL subgroup was identified based on its unique expression profile. Examination of the genes comprising the expression signatures provided important insights into the biology of these leukemia subgroups. Further, within some genetic subgroups, expression profiles identified those patients that would eventually fail therapy. Thus, the single platform of expression profiling should enhance the accurate risk stratification of pediatric ALL patients. |
Lang, Roland; Patel, Divyen; Morris, John J.; Rutschman, Robert L.; Murray, Peter J. Shaping Gene Expression in Activated and Resting Primary Macrophages by IL-10 Journal Article In: The Journal of Immunology, vol. 169, no. 5, pp. 2253–2263, 2002, ISSN: 0022-1767. @article{Lang2253,IL-10 regulates inflammation by reducing cytokine and chemokine production from activated macrophages. We performed microarray experiments to identify possible effector molecules of IL-10 and to investigate the global effect of IL-10 on the transcriptional response induced in LPS-activated macrophages. To exclude background effects of endogenous IL-10, macrophages from IL-10-deficient mice were used. IL-10 up-regulated expression of a small number of genes (26 and 37 after 45 min and 3 h, respectively), including newly identified and previously documented targets such as suppressor of cytokine signaling-3 and IL-1 receptor antagonist. However, the activation program triggered by LPS was profoundly affected by IL-10. IL-10 repressed 62 and further increased 15 of 259 LPS-induced genes. For all genes examined, the effects of IL-10 were determined to be STAT3-dependent. These results suggest that IL-10 regulates STAT3-dependent pathways that selectively target a broad component of LPS-induced genes at the mRNA level. |
Publications
2003 |
Use of Microarray Technology for Determining Gene Expression Signatures for Different Disease States: Journal Article In: 2003. |
2002 |
Genetic sources of individual differences in the cerebellum Journal Article In: Cerebellum, vol. 1, no. 4, pp. 233–240, 2002, ISSN: 1473-4222. |
Shaping gene expression in activated and resting primary macrophages by IL-10 Journal Article In: J Immunol, vol. 169, no. 5, pp. 2253–2263, 2002, ISSN: 0022-1767. |
Classification, subtype discovery, and prediction of outcome in pediatric acute lymphoblastic leukemia by gene expression profiling Journal Article In: Cancer Cell, vol. 1, no. 2, pp. 133–143, 2002, ISSN: 1535-6108. |
Shaping Gene Expression in Activated and Resting Primary Macrophages by IL-10 Journal Article In: The Journal of Immunology, vol. 169, no. 5, pp. 2253–2263, 2002, ISSN: 0022-1767. |