Bilateral gene interaction hierarchy analysis of the cell death gene response emphasizes the significance of cell cycle genes following unilateral traumatic brain injury.

BMC Genomics
Todd E WhiteByron D Ford

Abstract

Delayed or secondary cell death that is caused by a cascade of cellular and molecular processes initiated by traumatic brain injury (TBI) may be reduced or prevented if an effective neuroprotective strategy is employed. Microarray and subsequent bioinformatic analyses were used to determine which genes, pathways and networks were significantly altered 24 h after unilateral TBI in the rat. Ipsilateral hemi-brain, the corresponding contralateral hemi-brain, and naïve (control) brain tissue were used for microarray analysis. Ingenuity Pathway Analysis showed cell death and survival (CD) to be a top molecular and cellular function associated with TBI on both sides of the brain. One major finding was that the overall gene expression pattern suggested an increase in CD genes in ipsilateral brain tissue and suppression of CD genes contralateral to the injury which may indicate an endogenous protective mechanism. We created networks of genes of interest (GOI) and ranked the genes by the number of direct connections each had in the GOI networks, creating gene interaction hierarchies (GIHs). Cell cycle was determined from the resultant GIHs to be a significant molecular and cellular function in post-TBI CD gene response. Cell cycle and a...Continue Reading

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Citations

Feb 2, 2017·Journal of Neurotrauma·Chuan-Fang WangJi-Yao Jiang
Jan 16, 2019·Journal of Cellular Physiology·Yan ChengPeter Quesenberry
Aug 24, 2019·Frontiers in Cellular Neuroscience·Saef IzzyMichael J Whalen

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Methods Mentioned

BETA
chips
Reverse
PCR

Software Mentioned

Affymetrix
Excel
Ingenuity
IPA
MAS5
Affymetrix Expression [UNK]
Ingenuity Pathway Analysis ( IPA )
Ingenuity Knowledge Base

Related Concepts

Related Feeds

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Apoptosis is a specific process that leads to programmed cell death through the activation of an evolutionary conserved intracellular pathway leading to pathognomic cellular changes distinct from cellular necrosis

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