MassIVE MSV000100087

Partial Public

POP5 dysregulation causes syndromic immunodeficiency associated with defects in ribosomal and transfer RNA processing and telomere length

Subscribe Comment Convert Spectra Add Reanalysis

Description

The goal of this study was to investigate the molecular role of human POP5 in immune cell function, with a particular focus on identifying interaction partners and disease associated mutations that could alter POP5 activity. We performed comprehensive interactomics analyses on both wild type POP5 and selected disease associated POP5 mutants. POP5 constructs were generated with N and C terminal MAC tags to enable affinity purification and proximity labeling. Stable HEK293 cell lines expressing the POP5 variants were established using the MAC tag system, followed by doxycycline inducible expression where applicable. For interactome mapping, we employed affinity purification–mass spectrometry (AP MS) and BioID based proximity labeling to capture both stable and transient interaction partners. Purified protein complexes were analyzed using high resolution LC MS/MS, and interaction networks were constructed using SAINT, CRAPome filtering, and STRING based functional clustering. Differential interactome analysis was performed to compare wild type and mutant POP5, identifying mutation specific interaction changes. [doi:10.25345/C58G8FX1T] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: POP5, RNase MRP, RNase P, ribosomal RNA, transfer RNA, immunodeficiency, telomere length ; DatasetType:Proteomics

Contact

Principal Investigators:
(in alphabetical order) 		Markku Varjosalo, University of Helsinki, Finland
Submitting User: XIOLIU
Number of Files:
Total Size:
Spectra:
Subscribers:
 
Owner Reanalyses
Experimental Design
    Conditions:
    Biological Replicates:
    Technical Replicates:
 
Identification Results
    Proteins (Human, Remapped):
    Proteins (Reported):
    Peptides:
    Variant Peptides:
    PSMs:
 
Quantification Results
    Differential Proteins:
    Quantified Proteins:
 
Browse Dataset Files
 
FTP Download Link (click to copy):

Species

Instrument

Modifications

- Dataset Reanalyses

+ Dataset History

Click here to queue conversion of this dataset's submitted spectrum files to open formats (e.g. mzML). This process may take some time.

When complete, the converted files will be available in the "ccms_peak" subdirectory of the dataset's FTP space (accessible via the "FTP Download" link to the right).
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.

"N/A" means no results of this type were submitted.
Number of distinct biological replicates across all analyses (original submission and reanalyses) associated with this dataset.

Distinct replicate labels are counted across all files submitted in the "Metadata" category having a "BioReplicate" or "Replicate" column in this dataset.

"N/A" means no results of this type were submitted.
Number of distinct technical replicates across all analyses (original submission and reanalyses) associated with this dataset.

The technical replicate count is defined as the maximum number of times any one distinct combination of condition and biological replicate was analyzed across all files submitted in the "Metadata" category. In the case of fractionated experiments, only the first fraction is considered.

"N/A" means no results of this type were submitted.
Originally identified proteins that were automatically remapped by MassIVE to proteins in the SwissProt human reference database.

"N/A" means no results of this type were submitted.
Number of distinct protein accessions reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Number of distinct unmodified peptide sequences reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Number of distinct peptide sequences (including modified variants or peptidoforms) reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Total number of peptide-spectrum matches (i.e. spectrum identifications) reported across all analyses (original submission and reanalyses) associated with this dataset.

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