6 research outputs found
MOESM4 of Reproducible proteomics sample preparation for single FFPE tissue slices using acid-labile surfactant and direct trypsinization
Additional file 4. Proteome overlaps and Pearson correlation coefficients between all DTR and FASP replicates. (A) Percent of shared proteins between all replicates. (B) Pearson correlation coefficients of LFQ intensities between all replicates
MOESM2 of Reproducible proteomics sample preparation for single FFPE tissue slices using acid-labile surfactant and direct trypsinization
Additional file 2. Shared peptides between replicates and peptide amounts. (A) Peptide overlap between replicates. (B) Peptide amounts measured by BCA assay after tryptic digestion
MOESM2 of Proteomic distinction of renal oncocytomas and chromophobe renal cell carcinomas
Additional file 2: Table S2. Overview of the > 2400 proteins were identified (false-discovery rate < 1%) and quantified in at least four RO and four chRCC samples
MOESM5 of Reproducible proteomics sample preparation for single FFPE tissue slices using acid-labile surfactant and direct trypsinization
Additional file 5. Distribution of LFQ intensities for the differently stained tissues processed with the DTR protocol. Distribution of log2 transformed LFQ intensities for all replicates stained with H&E (purple), hematoxylin (blue), hemalaun (pink) or unstained (white)
MOESM1 of Reproducible proteomics sample preparation for single FFPE tissue slices using acid-labile surfactant and direct trypsinization
Additional file 1. Shared proteins between the replicates and peptide numbers per protein. (A) Overlap between identified proteins. (B) Frequency of shared proteins between the replicates. (C) Average peptide numbers for each protocol and proteins depending on their appearance in multiple replicates
MOESM3 of Reproducible proteomics sample preparation for single FFPE tissue slices using acid-labile surfactant and direct trypsinization
Additional file 3. Distribution of LFQ intensities for the DTR and FASP protocols. Log2 transformed LFQ intensity distribution depicted for all replicates with DTR in black, FASP 10Â k in dark grey and FASP 30Â k in light grey