QCeltis Case Study 1: Depleted Plasma QC Dataset

ABSTRACT: A dataset containing depleted plasma samples used as quality control technical replicates (TR) and digestion replicates (DR). Plasma aliquot was shunted to Top14 Abundant Protein Depletion Resin (A36372) based depletion. Depleted plasma samples were processed on a i7 automated liquid handling system (Beckman Coulter) in a 96-well plate for protein denaturation, cysteine reduction and alkylation, and trypsin digestion. Healthy control pooled samples were used as DRs and embedded between samples during digestion. Depleted plasma tryptic peptides were separated by EVOSEP One LC System (Evosep) over a 45-minute gradient injected into an Orbitrap Exploris 480 MS (Thermo Fisher) using DIA-MS settings as described by McArdle and Binek et. al. During MS acquisition, the 4 DRs are run at the beginning of each batch. In addition, pooled, bulk digested plasma samples from Parkinsons Disease patients are included as technical replicates (TRs) at the beginning and middle of every MS batch, with the goal of assessing LC-MS performance.

INSTRUMENT(S): Orbitrap Exploris 480

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

SUBMITTER: Jennifer Van Eyk  

PROVIDER: MSV000095742 | MassIVE |

SECONDARY ACCESSION(S): PXD055481

REPOSITORIES: MassIVE