Computational protocol: Proteomics Based Identification of Proteins with Deregulated Expression in B Cell Lymphomas

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Protocol publication

[…] Cells were collected by centrifuging at 1200rpm for 5 minutes at 4°C and incubated with an anti-B2M antibody (1:750, Dako, Glostrup, Denmark) for 30 minutes on ice. Cells were washed with 1ml 1% PBS/BSA and FITC labeled goat anti rabbit antibody (1:10, Southern Biotech, Birmingham, AL USA) was added as the secondary antibody. Acquisition was performed on a Calibur flow cytometer (BD Biosciences, San Jose, CA USA) and data were analyzed with Winlist software. [...] Statistical analysis was performed with IBM SPSS Statistics 22. The Mann-Whitney U-test was used to compare B2M, PRDX1, and PPIA expression levels in NHL groups and LCLs for MFI and mRNA levels. Differences of B2M, PRDX1, and PPIA staining were defined by Chi-square test for immunohistochemistry. A paired T-test was performed to define the difference in cell viability before and after cyclosporine A treatment. The correlation of PPIA expression level and cell viability was defined by Spearman-test. All analyses were two-tailed. P<0.05 was considered as significant. […]

Pipeline specifications

Software tools WinList, SPSS
Applications Miscellaneous, Flow cytometry
Diseases Lymphoma, Lymphoma, Non-Hodgkin, Neoplasms
Chemicals Cyclosporine