Skip to main content

Advertisement

Table 1 Timing and difficulty level of different sample preparation protocols for MS-based proteomics

From: Evaluation of sample preparation methods for mass spectrometry-based proteomic analysis of barley leaves

Procedurea FASP SDS-ISD SDC-FASP SDC-ISD OP-ISD
Timing (h) Difficulty levelb Timing (h) Difficulty level Timing (h) Difficulty level Timing (h) Difficulty level Timing (h) Difficulty level
Protein extraction 1.5 1.5 1.5 1.5 1.5
Protein quantification 1 0.5 1 1 1
Clean up at protein level 1.5 9 1 0 0
Reduction and alkylation 0.5 0.5 0.5 0.5 0
Clean up at peptide level 0 0 0.5 0.5 0.5
Digestion 7 6 7 6 6
Total 11.5 17.5 11.5 9.5 9
  1. aprotein quantification can be performed by several methods. The timing is calculated from the method that required least time to be done, i.e. BCA methods for FASP, SDC-FASP, SDC-ISD and OP-IS protocols and Qubit for SDS-ISD
  2. bThe difficulty level reflects the time required, the number of steps to be performed and the complexity of the steps; an open star indicates the easiest step, while the number of filled stars shows the level of difficulty of each step