Data acquisition, peak integration, and calibrations in HPLC were performed with Dionix Chromeleon software (Version 6.80 RS 10).
Data acquisition, peak integration, and calibrations were accomplished using Dionex Chromeleon software (Version 6.80 RS 10).
Following data acquisition, peak areas under the curve were calculated using an open source proteomic software platform Skyline [ 23] (Skyline v. 1.1, MacCoss Lab, Seattle, WA) and a linear standard curve (y = 5884.7x-9111.7, R = 0.9998) was generated using Microsoft Excel.
However, not only would splitting inevitably increase the overall number of breath-hold periods and breathing instructions, it would also interrupt the time sequence during contrast media inflow and potentially jeopardise sufficient data acquisition at peak arterial attenuation.
Instrument control, data acquisition and peak integration were performed with the Xcalibur software 2.1 (Thermo Scientific).
Instrument control, data acquisition and peak integration were performed using the Xcalibur software 2.1 (Thermo Scientific, Bremen, Germany).
The ICP-MS operation and data acquisition (by peak hopping) was accomplished by using Qtegra software, using a dwell time of 10 ms and 20 sweeps per reading, and 4 replicates per sample.
The times indicated (0, 30 and 60 min) represent the beginning of the spectral data acquisition, and peaks assigned to the α- (around 5.2 ppm) and β-anomers (around 4.6 ppm) are shown.
Detailed information about protein digestion, mass spectrometry data acquisition are in Additional file 7. Peak lists of precursor and fragment ions were matched to proteins in the NCBI non redundant database (March 2008, 7,387,702 sequences; 2,551,671,261 residues, taxonomy of Arabidopsis) using the MASCOT version 2.2 program (Matrix Science, London).
The mean turnaround time from specimen data acquisition to result reporting for the 4 peak months of the 2009 outbreak was <24 hours.
For each sample spot, a data dependent acquisition method was created to select the seven most intense peaks(S/N>50), excluding those from the matrix, due to trypsin autolysis or acrylamide peaks, for subsequent MS/MS data acquisition.
