File S1 - Integrated Proteomics Identified Up-Regulated Focal Adhesion-Mediated Proteins in Human Squamous Cell Carcinoma in an Orthotopic Murine Model

Contains the following Supporting Information files: Table A: Up-regulated and down-regulated proteins identified by LC-MS/MS according to the number of unique peptides Only statistically significant proteins are shown in this table (Fisher's exact test, p<0.05). Table B: Endogenous peptides identified by LC-MS/MS according to the number of unique peptides. Only statistically significant proteins are shown in this table (Fisher's exact test, p<0.05). Table C: List of total proteins with the number of unique peptides found in both Human and Mouse Databases after searching against Human database. For the comparison of the expression of proteins and peptides between control and tumor tissues, the Fisher's exact test was applied at significance level at 5%. Table D: List of total proteins with the number of unique peptides found in both Human and Mouse Databases after searching against Mouse database. For the comparison of the expression of proteins and peptides between control and tumor tissues, the Fisher's exact test was applied at significance level at 5%. Table E: List of total proteins with the number of unique endogenous peptides obtained from CID fragmentation method. For the comparison of the expression of proteins and peptides between control and tumor tissues, the Fisher's exact test was applied at significance level at 5%. Table F: List of total proteins with the number of unique endogenous peptides obtained from HCD fragmentation method. For the comparison of the expression of proteins and peptides between control and tumor tissues, the Fisher's exact test was applied at significance level at 5%. Table G: List of total proteins with the number of unique endogenous peptides obtained from ETD fragmentation method. For the comparison of the expression of proteins and peptides between control and tumor tissues, the Fisher's exact test was applied at significance level at 5%. Table H: Functional Annotation Chart for the Up-regulated Proteins using DAVID Gene Functional Classification Tool. Table I: Functional Annotation Chart for the Down-regulated Proteins using DAVID Gene Functional Classification Tool. Table J: Clinicopathological variables of OSCC patients. Figure A: Experimental workflow of the proteomic, peptidomic and bioinformatic analyses, and validation performed in this study. Figure B: Talin-1 mRNA expression levels in (a) A431/siRNA TLN-1 cells compared to A431/control (scrambled) and (b) in SCC-9 LN1/siRNA TLN-1 cells compared to SCC-9 LN1/control (scrambled) (n = 1, with three replicates). The data were normalized with GAPDH gene.
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