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A systems biology strategy to identify molecular mechanisms of action and protein indicators of traumatic brain injury.

Yu C, Boutté A, Yu X, Dutta B, Feala JD, Schmid K, Dave J, Tawa GJ, Wallqvist A, Reifman J - J. Neurosci. Res. (2014)

Bottom Line: In particular, we identified a suppressed subnetwork consisting of 58 highly interacting, coregulated proteins associated with synaptic function.We selected three proteins from this subnetwork, postsynaptic density protein 95, nitric oxide synthase 1, and disrupted in schizophrenia 1, and hypothesized that their abundance would be significantly reduced after TBI.The results suggest that systems biology may provide an efficient, high-yield approach to generate testable hypotheses that can be experimentally validated to identify novel mechanisms of action and molecular indicators of TBI.

View Article: PubMed Central - PubMed

Affiliation: Department of Defense Biotechnology High Performance Computing Software Applications Institute, Telemedicine and Advanced Technology Research Center, U.S. Army Medical Research and Materiel Command, Fort Detrick, Maryland.

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Temporal profile of the aggregate expression scores of the genes in the synaptic subnetwork (Fig. 4B) for data set R-FPIm in Table1. The gene expression was suppressed during the 21-day period, reaching a nadir between 24 hr and 72 hr after injury and eventually returning to baseline at 21 days.
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fig05: Temporal profile of the aggregate expression scores of the genes in the synaptic subnetwork (Fig. 4B) for data set R-FPIm in Table1. The gene expression was suppressed during the 21-day period, reaching a nadir between 24 hr and 72 hr after injury and eventually returning to baseline at 21 days.

Mentions: To investigate the functional characteristics of the synaptic subnetwork further, we analyzed its temporal expression changes from 30 min to 21 days after injury by using the R-FPIm data set (Table1). Figure 5 shows the temporal profile of the normalized aggregate gene expression values, indicating that the genes in the synaptic subnetwork tended to be attenuated during the 21-day period, reaching a nadir between 24 and 72 hr after injury and eventually returning to baseline at 21 days. A similar analysis with the more limited M-CCI data set (Table1) corroborated these results.


A systems biology strategy to identify molecular mechanisms of action and protein indicators of traumatic brain injury.

Yu C, Boutté A, Yu X, Dutta B, Feala JD, Schmid K, Dave J, Tawa GJ, Wallqvist A, Reifman J - J. Neurosci. Res. (2014)

Temporal profile of the aggregate expression scores of the genes in the synaptic subnetwork (Fig. 4B) for data set R-FPIm in Table1. The gene expression was suppressed during the 21-day period, reaching a nadir between 24 hr and 72 hr after injury and eventually returning to baseline at 21 days.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4305271&req=5

fig05: Temporal profile of the aggregate expression scores of the genes in the synaptic subnetwork (Fig. 4B) for data set R-FPIm in Table1. The gene expression was suppressed during the 21-day period, reaching a nadir between 24 hr and 72 hr after injury and eventually returning to baseline at 21 days.
Mentions: To investigate the functional characteristics of the synaptic subnetwork further, we analyzed its temporal expression changes from 30 min to 21 days after injury by using the R-FPIm data set (Table1). Figure 5 shows the temporal profile of the normalized aggregate gene expression values, indicating that the genes in the synaptic subnetwork tended to be attenuated during the 21-day period, reaching a nadir between 24 and 72 hr after injury and eventually returning to baseline at 21 days. A similar analysis with the more limited M-CCI data set (Table1) corroborated these results.

Bottom Line: In particular, we identified a suppressed subnetwork consisting of 58 highly interacting, coregulated proteins associated with synaptic function.We selected three proteins from this subnetwork, postsynaptic density protein 95, nitric oxide synthase 1, and disrupted in schizophrenia 1, and hypothesized that their abundance would be significantly reduced after TBI.The results suggest that systems biology may provide an efficient, high-yield approach to generate testable hypotheses that can be experimentally validated to identify novel mechanisms of action and molecular indicators of TBI.

View Article: PubMed Central - PubMed

Affiliation: Department of Defense Biotechnology High Performance Computing Software Applications Institute, Telemedicine and Advanced Technology Research Center, U.S. Army Medical Research and Materiel Command, Fort Detrick, Maryland.

Show MeSH
Related in: MedlinePlus