Research article
Analysis of striatal transcriptome in mice overexpressing human wild-type alpha-synuclein supports synaptic dysfunction and suggests mechanisms of neuroprotection for striatal neurons
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* Corresponding author: Yofre Cabeza-Arvelaiz yofrecabeza@gmail.com
1 Department of Pathology and Environmental Health Sciences, The Geffen School of Medicine and School of Public Health, University of California, Los Angeles, 650 Charles E. Young Dr. S, CHS 71-295; Los Angeles, CA 90095, USA
2 Department of Neurology, The Geffen School of Medicine, University of California, Los Angeles, 710 Westwood plaza, Los Angeles, CA 90095, USA
3 Department of Neurosciences, University of California, San Diego; 9500 Gilman Drive, La Jolla, CA 92093, USA
Molecular Neurodegeneration 2011, 6:83 doi:10.1186/1750-1326-6-83
Published: 13 December 2011Additional files
Additional file 1:
Figure S1. Normalization scatter plot between the α-synuclein overexpressing (ASO) transgenic (tg) mice and the baseline control wild type (wt) mice illustrating the quality of the data.
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Additional file 2:
Table S1. List of genes differentially expressed genes between α-Synuclein overexpressing (ASO) mice and wild type (wt) mice in striatal tissue at 6 months. A gene probe was considered differentially expressed if it reported signal log2 ratio > 0.6 (> 1.52 fold change), after pairwise comparison using the Affymetrix MAS 5.0 software with change p-value < 0.005 for induce genes, and change p-value > 0.995 for decreased genes. 96 genes were upregulated (shaded in pink), whereas 137 genes showed decreased (shaded in green) expression in the ASO samples. The probes from this list were used to identify overrepresented functional categories using DAVID listed in Table 2 and illustrated in Figure 3.
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Additional file 3:
Table S2. Supplementary table listing the primer sets used for qRT-PCR analysis to corroborate microarray analysis results.
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Additional file 4:
Table S3-ABCDE. Supplementary tables listing data used for qRT-PCR results comparisons. (A) the qRT-PCR data used for the statistical analyses for pooled samples in Figure 1A and the microarray fold change value for each of the compared transcript (B) the t-test result for each individual transcript in Figure 1A, (C) the qRT-PCR data used for the statistical analyses for non-pooled samples in Figure 1B and the microarray fold change value for each of the compared transcript (D) the t-test result for each individual transcript in Figure 1B, and(E) The correlation analysis results between the microarray data and qRT-PCR data in Figures 1A and 1B. Additional detection statistics and fold change values for each of these probe sets and other probe sets for differentially expressed transcripts is shown in Table S1.
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