MassIVE MSV000083404

Partial Public PXD012599

Three-pronged 'Pitchfork' strategy enables an extensive description of human membrane proteome and identification of missing proteins

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Description

In this study, we combined the transmembrane segment-oriented method hpTC with a solid phase enrichment of glycopeptides (SPEG) and standard 'detergent and trypsin' approach into a three-pronged 'Pitchfork' strategy to maximize membrane proteome coverage. The strategy enabled identification of over 1200 IMPs in human lymphoma cells. [doi:10.25345/C5GS49] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: integral membrane proteins ; cyanogen bromide ; glycopeptide enrichment ; missing proteins ; mantle cell lymphoma

Contact

Principal Investigators:
(in alphabetical order) 		Ondrej Vit, Charles University, First Faculty of Medicine, Czech Republic
Submitting User: hwllffrdd
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Identification Results
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Number of distinct conditions across all analyses (original submission and reanalyses) associated with this dataset.

Distinct condition labels are counted across all files submitted in the "Metadata" category having a "Condition" column in this dataset.

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Number of distinct biological replicates across all analyses (original submission and reanalyses) associated with this dataset.

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Number of distinct technical replicates across all analyses (original submission and reanalyses) associated with this dataset.

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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 protein accessions reported across all analyses (original submission and reanalyses) associated with this dataset.

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Number of distinct unmodified peptide sequences reported across all analyses (original submission and reanalyses) associated with this dataset.

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Number of distinct peptide sequences (including modified variants or peptidoforms) reported across all analyses (original submission and reanalyses) associated with this dataset.

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Total number of peptide-spectrum matches (i.e. spectrum identifications) reported across all analyses (original submission and reanalyses) associated with this dataset.

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Number of distinct proteins quantified across all analyses (original submission and reanalyses) associated with this dataset.

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

"N/A" means no results of this type were submitted.
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.

A protein is differentially abundant if its change in abundance across conditions is found to be statistically significant with an adjusted p-value <= 0.05 and lists no issues associated with statistical tests for differential abundance.

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

"N/A" means no results of this type were submitted.
This dataset may not contain all raw spectra data as originally deposited in PRIDE. It has been imported to MassIVE for reanalysis purposes, so its spectra data here may consist solely of processed peak lists suitable for reanalysis with most software.