description
specification
resources
project workflow
ffpe sample analysis when there are suitable library construction samples:
- ffpe samples
- dewaxing and rehydration
- decrosslink
- protein
- enzymolysis
- lc-ms/ms dia analysis
- data analysis
ffpe sample analysis when there are no suitable library construction samples:
- ffpe samples
- dewaxing and rehydration
- decrosslink
- protein
- enzymolysis
- lc-ms/ms dda analysis
- data analysis
references
[1] marchione d m, et al., hypersol: high-quality data from archival ffpe tissue for clinical proteomics. j proteome res, 2020 feb 7; 19(2): 973–983.
how to order
mass spectrometry service specification
ffpe proteomics services are performed using nano-flow liquid chromatography and cutting-edge q exactive hf/hf-x mass spectrometer.
sample preparation and services
- the qc analysis of enzymatic hydrolysis is strictly controlled by lc-ms
- dda-spectral library generated using hplc technology and sample fractionation
quality standard
- summary includes all methods and data analysis
- reports provided in excel or pdf format, raw files available upon request
turn around time
- typical 5-6 weeks from sample qc acceptance to data report delivery
sample requirements
data analysis
- data analysis and validation performed with mascot
- protein identification and quantification list
- differential proteins data statistics and volcano plot
- principal component analysis (pca) and cluster analysis
- protein go/cog/kog/pathway annotation
- go/cog/kog enrichment analysis of differential proteins
- protein-protein interaction analysis
- protein subcellular localization analysis
- time series analysis
- repeatability analysis