The purpose of this year’s
ABRF iPRG study was to evaluate different data analysis methods for relative
protein-level quantification in label-free proteomics. In conclusion of the
study, PEAKS label-free quantification proved to successfully demonstrate a high-level
of accuracy in determining relative protein abundance.
Graphs from the results were retrieved from the ABRF iPRG Preliminary Results Summary. To view the full Preliminary Results Summary, please use the link provided below.
The first graph shown is an overview of all the participating Study IDs in relation to their results as seen on slide 20 in the Preliminary Results Summary. The same graph is then presented again on slides 24 and 25 (zoomed in), to show the specific tools used for peptide ID, as well as quantification for each submission. .
Of the 51 submissions, very few were able to recognize the true differentially abundant (DA) proteins, as seen in the graph. PEAKS, however, recognized all 6 true DA proteins (represented in blue), and reported 0 false DA proteins (represented in red).
Participating researchers were
required to detect and identify proteins that changed in relative abundance
among four biological samples, prepared from the same S. cerevisae yeast
cell lysate.
To truly focus on the
statistical assessment of the varying data processing approaches, the peptide identifications
and their associated integrated peak intensities were provided to all
participants.
