Benchmarking commonly used software suites and analysis workflows for DIA proteomics and phosphoproteomics

ABSTRACT: This repository is related to the work "Benchmarking commonly usedsoftware suites and analysis workflows for DIA proteomics and phosphoproteomics". The following files are stored here: 1. four MS datasets generated in this work, including two two-species benchmark datasets acquired on QE HF and timsTOF Pro, and two TNF-alpha induced phosphoproteomics datasets acquired on QE HF-X and timsTOF Pro; 2. all spectral libraries used in this work; 3. raw MS data search reports with analysis logs included if software reported; 4. preprocessed MS data search reports for any result from HF and TIMS DIA benchmark datasets; 5. FASTAs used in this work; 6. a description file (Description_of_iProX_and_public_data.xlsx) for the stored files in this repository and other public data used in this work. Note: 3 and 4 are packed into one zip file for each data search experiment.

ORGANISM(S): Homo Sapiens Saccharomyces Cerevisiae S288c Mus Musculus

SUBMITTER: Wenqing Shui  

PROVIDER: PXD034709 | iProX | Thu Dec 08 00:00:00 GMT 2022

REPOSITORIES: iProX