Proteomics

Dataset Information

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IEvaluation of spin columns for human plasma depletion to facilitate MS-based proteomics analysis of SARS-cov-2 positive plasman columns for human plasma depletion to facilitate MS-based proteomics analysis of SARS-cov-2 positive plasma


ABSTRACT: the benefit on the number of identified proteins is well documented and the depletion step remains widely used in in-depth proteomics. Recently, single-use depletion spin columns have been developed (i.e High Select™ Top14 Abundant Protein Depletion Mini Spin Columns, Thermo) which greatly reduces the handling time compared to HPLC columns and enables parallel depletion of multiple samples which has not been possible in the previous multiple use columns. The covid-19 pandemic also shed light on the need of a depletion protocol easily adapted in a BSL3 facility without needs for special equipment such as an HPLC system, as heat inactivation of the virus prior to depletion could affect the depletion efficacy. The aim of this study was to evaluate the use of single-use spin columns for high abundant protein depletion prior to in-depth MS based global plasma analysis, to improve throughput while maintaining high proteome coverage and high reproducibility.

INSTRUMENT(S): Q Exactive HF

ORGANISM(S): Homo Sapiens (human) Macaca Mulatta (rhesus Macaque)

TISSUE(S): Blood Plasma

SUBMITTER: Georgios Mermelekas  

LAB HEAD: Maria Pernemalm

PROVIDER: PXD023148 | Pride | 2021-07-30

REPOSITORIES: Pride

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Publications

Evaluation of Spin Columns for Human Plasma Depletion to Facilitate MS-Based Proteomics Analysis of Plasma.

Cao Xiaofang X   Sandberg AnnSofi A   Araújo José Eduardo JE   Cvetkovski Filip F   Berglund Erik E   Eriksson Lars E LE   Pernemalm Maria M  

Journal of proteome research 20210728 9


High abundant protein depletion is a common strategy applied to increase analytical depth in global plasma proteomics experiment setups. The standard strategies for depletion of the highest abundant proteins currently rely on multiple-use HPLC columns or multiple-use spin columns. Here we evaluate the performance of <i>single-use</i> spin columns for plasma depletion and show that the single-use spin reduces handling time by allowing parallelization and is easily adapted to a nonspecialized lab  ...[more]

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