MS 2 Rescore 3.0 in combination with MS Amanda 3.0 was tested on a single-cell proteomics data from Furtwängler and colleagues. Only data from the "MS2 500 ms" and "MS2 750 ms" acquisition workflows were used. OCI-AML8227 cells were grown, harvested and subjected to FACS sorting at single-cell resolution from three different gates (CD34-, CD34+CD38and CD34+CD38+). After digestion of protein lysates from single cells using trypsin, TMT-Pro (Thermo Fisher Scientific) reagents were added to the single-cell wells. After the labeling To study the effects of rescoring using MS 2 Rescore, the MS Amanda search was performed twice for each file. One search was performed with Percolator enabled and one with Percolator disabled. Results from the search without Percolator were then passed to MS 2 Rescore for data-driven rescoring.