Proteomics

Dataset Information

In-Depth Comparison of Reagent-Based Digestion Methods and Two Commercially Available Kits for Bottom-Up Proteomics

ABSTRACT: We assessed two physical disruption methods to homogenize cells —sonication and BeatBox—alongside four digestion protocols. Two of them are lab-reagent strategies: urea-based, and SDC (Sodium deoxycholate)-based in-solution digestion, and two are commercially available kits: the EasyPep kit from Thermo Fisher Scientific and S-Trap from Protifi. Each method's efficacy was evaluated based on protein recovery, peptide yield, and number of unique proteins identified through LC-MS analysis.

INSTRUMENT(S):

ORGANISM(S): Homo Sapiens (human)

SUBMITTER: Travis Uslan  

LAB HEAD: Tsui-fen Chou

PROVIDER: PXD056409 | Pride | 2026-01-07

REPOSITORIES: Pride

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Dataset's files

Source:
Action DRS
GO_Panther_text_files.zip Other
PXD056409_community_annotated.sdrf.tsv Tabular
TU_20240518_QE_Aur2hr_SDC_BeatBox_C18_N1_01.pepXML Pepxml
TU_20240518_QE_Aur2hr_SDC_BeatBox_C18_N1_01.pin Other
TU_20240518_QE_Aur2hr_SDC_BeatBox_C18_N1_01.raw Raw
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