|
-
-
- Virginia Commonwealth University BXD Prefrontal Cortex
- - - - Summary: -- -This BXD data set provides estimates of prefrontal cortex mRNA expression in response to a saline injection (injection control) across 27 BXD recombinant inbred strains and their B6 and D2 progenitor strains. All samples are from a total of 468 adult male animals obtained from Jackson Laboratory and raised in a standard laboratory environment. An average of 8 males per strain was used to measure anxiety-like behavior in response to restraint and saline treatment in the light-dark transition model of anxiety. Four hours after treatment, animals were rapidly sacrificed by cervical dislocation, brains were removed, cooled and microdissected as previously described (Kerns et al., J. Neurosci. 25:2255, 2005). -All RNA isolation and subsequent probe generation and hybridization to microarrays were completed using a supervised randomization procedure to minimize batch effects. Affymetrix M430 type 2.0 microarrays were used for hybridization using standard procedures. Expression analysis was conducted by estimating the relative abundance of over 45,000 transcripts in the prefrontal cortex in response to saline using the Robust Multichip Average (RMA) method. - -- About the animals and tissue used to generate this set of data: -- - -All animals (males only) were obtained at 8-9 weeks of age from the Jackson Laboratory (Bar Harbor, ME). Animals were treated, behaviorally tested, and dissected by Alex Putman and colleagues at VCU. Following an hour acclimation period to the behavioral room, animals were restrained for 15 minutes, immediately injected (I.P.) with 0.9% saline or 1.8 g/kg ethanol, and 5 minutes later placed in the light-dark box for a 10 minute test session. All behavioral testing occurred between 10 AM and 1 PM during the light phase over a 12 month period beginning August 2005. Four hours after treatment, animals were rapidly sacrificed by cervical dislocation, brains were removed, cooled and microdissected. Prefrontal cortex tissue was isolated by microdissection using a wedge-shaped slice taken from a 4-mm-thick brain slice extending rostrally from the optic chiasm. The wedge was centered on the inter-hemispheric fissure and extending 2 mm laterally on each side and ventrally to just above the corpus callosum. This tissue and all other brain regions were dissected in less than 5 minutes per mouse and were immediately frozen in liquid nitrogen followed by storage at -80 deg C prior to RNA isolation. A pool of dissected tissue from 3 mice of the same strain was used to generate RNA samples. All RNA samples were extracted at VCU by Alex Putman during October 2006 and the order of RNA isolation was randomized across all strains and treatment groups (since ethanol treated animals were processed concurrently). - - -- Sample Processing: - - -- Replication and Sample Balance: - - -- Experimental Design and Batch Structure: - - - -- About the array platform: -- -- Data Source Acknowledgments: -- -Work supported by NIAAA grants R01 AA13678 to Michael Miles and F31 AA016052 to Alex Putman. - - - -- Information about this text file: - - -This text file originally generated by Mike Miles and Alex Putman, August 15, 2007. Minor additions on quality control by RWW, August 17, 2007. - -- - - - - |
-
-
-
-