The extent of matrix effects in PXD residue analysis of soil, water, and wheat grain samples prepared by the QuEChERS sample preparation method was investigated.
Sequencing libraries were prepared following the Illumina Nextera DNA Sample Preparation Method Guide (Part 15027987 Rev. B, October 2012) starting from 50 ng of ligated ds cDNA.
Samples were prepared for digestion using the filter-assisted sample preparation method (https://doi.org/10.1038/nmeth.1322).1322
Interacting proteins were eluted with 6M urea, and samples were prepared for analysis using a filter-aided sample preparation method, essentially as described (Wisniewski et al., 2009 ).
Methods: Cell pellets for PCR were prepared from EDTA blood by the Amplicor whole blood PCR sample preparation method.
The sample preparation method is given in (Supplementary Note 7).
Wisniewski, J. R., Zougman, A., Nagaraj, N. & Mann, M. Universal sample preparation method for proteome analysis.
Wiśniewski, J. R., Zougman, A., Nagaraj, N. & Mann, M. Universal sample preparation method for proteome analysis.
Liu, W. et al. Sample preparation method for isolation of single-cell types from mouse liver for proteomic studies.
"The sample preparation method can be applied to a broad class of molecules," say Longchamp and friends.
The highest DNA concentration, achieved with our 'bulk' sample preparation method, was close to 300 mg ml−1.
