7 protocols
ID_REF = VALUE = Signal ABS_CALL = indicating whether the transcript was present (P), absent (A), or marginal (M) DETECTION P-VALUE =
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 800.
GeneChips were scanned using the GeneChip Scanner 3000.
Biotin-labelled and fragmented cRNAs were hybridized to the Mouse Genome 430 2.0 Array (Affymetrix, Santa Clara, CA).
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2007, Affymetrix).
Male mice were used from an animal model of selectively bred for high voluntary wheel-running behaviour (HR) and lines bred without intentional selection. Animals used in the current work were sampled from generation 37 at a mean age of 84 days (range = 79-86). We used gastrocnemius muscles (including both lateral and medial portions) from the mice described above for HRmini line #3 and HRnormal line #8 (n = 6, in each group). To obtain sufficient RNA, gastrocnemius samples of HRmini were pooled from left and right limbs from each animal, whereas HRnormal gastrocnemius was sampled from either left or right limb only.
Total RNA was extracted according to the standard Affymetrix protocol including Trizol extraction and Rneasy column cleanup.