MassIVE MSV000093211

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Proteomic analysis of ARF regulatory molecules co-immunoprecipitating with human SDC4 (huSDC4)

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Description

Proteomic analysis of ARF regulatory molecules co-immunoprecipitating with human SDC4 (huSDC4) from Syn4WT, Syn4-/-, Syn4Y180E and Syn4Y180L MEFs. Peptide analysis by LC-MS/MS was performed using an UltiMate 3000 Rapid Separation LC (Dionex Corporation) coupled to an Orbitrap Elite mass spectrometer (Thermo Fisher). Peptides were selected for fragmentation automatically by data-dependent analysis. Data produced were searched using Mascot (Matrix Science UK), against the uniprot.2011-05-03 mammalia database, with fragment ion mass tolerance of 0.50 Da and parent ion tolerance of 10.0 PPM. Scaffold 4 (Proteome Software) was used to validate MS/MS-based peptide and protein identifications. Peptide identifications were accepted at >95.0% probability by the Peptide Prophet and protein identifications were accepted at >99.0%. Proteins that contained similar peptides and could not be differentiated based on MS/MS analysis alone were grouped to satisfy principles of parsimony. [doi:10.25345/C5BG2HM8B] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: Syndecan-4 ; ARF6 ; CYTOHESIN2 ; IQSEC1

Contact

Principal Investigators:
(in alphabetical order) 		Mark Morgan, Universtiy of Liverpool, United Kingdom
Submitting User: HoracioML
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Originally identified proteins that were automatically remapped by MassIVE to proteins in the SwissProt human reference database.

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Number of distinct proteins found to be differentially abundant in at least one comparison across all analyses (original submission and reanalyses) associated with this dataset.

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Distinct protein accessions are counted across all files submitted in the "Statistical Analysis of Quantified Analytes" category having a "Protein" column in this dataset.

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