Table 1.
Subject parameters.
Figure 1.
Condition tree from Pearson correlation clustering algorithm.
Individual genes are colored according to expression ratio. CP samples cluster separately from typically developing controls, except for one subject. Both subject sample being clustered together indicates relatively little variability between gracilis and semitendinosus biopsies from the same subject. Table contains Subject ID in row 1 and either typically developing (TD) or CP (CP) in row 2.
Figure 2.
Comparison of quantitative real-time PCR data to microarray data.
The microarray data from MAS5 summarization algorithm is used. Each gene in A–F has a significant correlation (p<0.05). (G) atrogin-1 (FBXO32) and (H) MURF-1 (TRIM63) are quantified based on disease state and muscle as they are not present on the microarray.
Table 2.
Highlighted gene ontologies significantly over-represented in genes significantly altered in CP.
Figure 3.
Heatmap of functional muscle gene networks.
Heatmap based on expression ratio and separated by Entrez gene symbols are used for individual entities with the exception of gene families found in Table S3 in which case geometric means of multiple genes determine expression ratio. Gene symbols found to be significantly different in CP are colored based on direction of regulation. Gene families are colored if any individual gene in the family is significantly altered in CP. Genes with N/A were either not present on the chip or did not have expression to qualify as present in analysis.
Figure 4.
Correlation between transcript levels and stiffness.
Examples of significant correlation (p<0.05) between mRNA expression levels and passive mechanical stiffness measurements. (A) ubiquitin-conjugating enzyme E2I (UBE2I) has a negative correlation with fiber stiffness. (B) Collagen XXI alpha I (COL21A1) has a positive correlation with fiber bundle stiffness. (C) adenylate kinase 2 (AK2) and a mitochondrial intermembrane transcript has a negative correlation with bundle stiffness.
Table 3.
Gene ontology of transcripts correlated with stiffness.