Spatial and temporal gene expression profiling of the contused rat spinal cord

James B. Aimone; J. Leigh Leasure; Victoria M. Perreau; Michaela Thallmair; Aileen J. Anderson; Victor L. Arvanian; Florence M. Bareyre; Mary Bartlett Bunge; Carl W. Cotman; Luis Craveiro; Eric D. Crown; V. Reggie Edgerton; Christie Engesser-Cesar; Fred H. Gage; Anthony J. Garcia; Sandra M. Garraway; Philip J. Horner; Susan Howley; Ronaldo M. Ichiyama; Lorne M. Mendell; Lawrence D.F. Moon; Lynne Moore; Luis F. Parada; Damien D. Pearse; Jeffrey C. Petruska; Mario I. Romero; Lisa Schnell; Martin E. Schwab; Keith E. Tansey; Sandrine Thuret

doi:10.1016/j.expneurol.2004.05.042

Spatial and temporal gene expression profiling of the contused rat spinal cord

James B. Aimone, J. Leigh Leasure, Victoria M. Perreau, Michaela Thallmair, Aileen J. Anderson, Victor L. Arvanian, Florence M. Bareyre, Mary Bartlett Bunge, Carl W. Cotman, Luis Craveiro, Eric D. Crown, V. Reggie Edgerton, Christie Engesser-Cesar, Fred H. Gage, Anthony J. Garcia, Sandra M. Garraway, Philip J. Horner, Susan Howley, Ronaldo M. Ichiyama, Lorne M. MendellLawrence D.F. Moon, Lynne Moore, Luis F. Parada, Damien D. Pearse, Jeffrey C. Petruska, Mario I. Romero, Lisa Schnell, Martin E. Schwab, Keith E. Tansey, Sandrine Thuret

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

93 Scopus citations

Abstract

Microarray technology was used to examine gene expression changes following contusive injury of the adult rat spinal cord. To obtain a global understanding of the changes triggered by the injury, differential gene expression was examined spatially, using tissue samples from the epicenter of injury as well as 1 cm rostral and 1 cm caudal to the epicenter, and temporally, at 3 h, 24 h, 7 days, and 35 days post-injury. To filter out gene expression changes that were due to the laminectomy, samples of contused tissue were compared to laminectomy-only controls. We took advantage of four different, complementary methods of data analysis to detect differentially expressed genes. We have identified functional groups of genes that are differentially regulated in our model, including those associated with apoptosis, cell cycle, inflammation, and cholesterol metabolism. Our analysis has led to the identification of novel potential therapeutic targets within each group of genes that is discussed.

Original language	English (US)
Pages (from-to)	204-221
Number of pages	18
Journal	Experimental Neurology
Volume	189
Issue number	2
DOIs	https://doi.org/10.1016/j.expneurol.2004.05.042
State	Published - Oct 1 2004

Keywords

Affymetrix
Apoptosis
Cathepsin proteases
Cholesterol
Contusion
Microarray
Multi-method analysis

ASJC Scopus subject areas

Neurology
Developmental Neuroscience

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10.1016/j.expneurol.2004.05.042

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Aimone, J. B., Leasure, J. L., Perreau, V. M., Thallmair, M., Anderson, A. J., Arvanian, V. L., Bareyre, F. M., Bunge, M. B., Cotman, C. W., Craveiro, L., Crown, E. D., Edgerton, V. R., Engesser-Cesar, C., Gage, F. H., Garcia, A. J., Garraway, S. M., Horner, P. J., Howley, S., Ichiyama, R. M., ... Thuret, S. (2004). Spatial and temporal gene expression profiling of the contused rat spinal cord. Experimental Neurology, 189(2), 204-221. https://doi.org/10.1016/j.expneurol.2004.05.042

Aimone, JB, Leasure, JL, Perreau, VM, Thallmair, M, Anderson, AJ, Arvanian, VL, Bareyre, FM, Bunge, MB, Cotman, CW, Craveiro, L, Crown, ED, Edgerton, VR, Engesser-Cesar, C, Gage, FH, Garcia, AJ, Garraway, SM, Horner, PJ, Howley, S, Ichiyama, RM, Mendell, LM, Moon, LDF, Moore, L, Parada, LF, Pearse, DD, Petruska, JC, Romero, MI, Schnell, L, Schwab, ME, Tansey, KE & Thuret, S 2004, 'Spatial and temporal gene expression profiling of the contused rat spinal cord', Experimental Neurology, vol. 189, no. 2, pp. 204-221. https://doi.org/10.1016/j.expneurol.2004.05.042

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abstract = "Microarray technology was used to examine gene expression changes following contusive injury of the adult rat spinal cord. To obtain a global understanding of the changes triggered by the injury, differential gene expression was examined spatially, using tissue samples from the epicenter of injury as well as 1 cm rostral and 1 cm caudal to the epicenter, and temporally, at 3 h, 24 h, 7 days, and 35 days post-injury. To filter out gene expression changes that were due to the laminectomy, samples of contused tissue were compared to laminectomy-only controls. We took advantage of four different, complementary methods of data analysis to detect differentially expressed genes. We have identified functional groups of genes that are differentially regulated in our model, including those associated with apoptosis, cell cycle, inflammation, and cholesterol metabolism. Our analysis has led to the identification of novel potential therapeutic targets within each group of genes that is discussed.",

keywords = "Affymetrix, Apoptosis, Cathepsin proteases, Cholesterol, Contusion, Microarray, Multi-method analysis",

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AU - Anderson, Aileen J.

AU - Arvanian, Victor L.

AU - Bareyre, Florence M.

AU - Bunge, Mary Bartlett

AU - Cotman, Carl W.

AU - Craveiro, Luis

AU - Crown, Eric D.

AU - Edgerton, V. Reggie

AU - Engesser-Cesar, Christie

AU - Gage, Fred H.

AU - Garcia, Anthony J.

AU - Garraway, Sandra M.

AU - Horner, Philip J.

AU - Howley, Susan

AU - Ichiyama, Ronaldo M.

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AU - Moon, Lawrence D.F.

AU - Moore, Lynne

AU - Parada, Luis F.

AU - Pearse, Damien D.

AU - Petruska, Jeffrey C.

AU - Romero, Mario I.

AU - Schnell, Lisa

AU - Schwab, Martin E.

AU - Tansey, Keith E.

AU - Thuret, Sandrine

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AB - Microarray technology was used to examine gene expression changes following contusive injury of the adult rat spinal cord. To obtain a global understanding of the changes triggered by the injury, differential gene expression was examined spatially, using tissue samples from the epicenter of injury as well as 1 cm rostral and 1 cm caudal to the epicenter, and temporally, at 3 h, 24 h, 7 days, and 35 days post-injury. To filter out gene expression changes that were due to the laminectomy, samples of contused tissue were compared to laminectomy-only controls. We took advantage of four different, complementary methods of data analysis to detect differentially expressed genes. We have identified functional groups of genes that are differentially regulated in our model, including those associated with apoptosis, cell cycle, inflammation, and cholesterol metabolism. Our analysis has led to the identification of novel potential therapeutic targets within each group of genes that is discussed.

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KW - Multi-method analysis

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Spatial and temporal gene expression profiling of the contused rat spinal cord

Abstract

Keywords

ASJC Scopus subject areas

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