MassIVE MSV000095407

Complete Public PXD054121

Barbulescu_Fam72a_TripleTOF6600_P124

Subscribe Comment Convert Spectra Reanalyze Spectra Compare Results Add Reanalysis

Description

This dataset consists of 12 raw MS files and associated peak lists and results files, acquired on an ABSciex TripleTOF6600 operated in Data Dependent Acquisition mode. Samples were generated and affinity purification was performed by Philip Barbulescu. Trypsin digestion was performed by Laura McGary. Mass spectrometry acquisition was performed by Laura McGary. Analysis was performed by Philip Barbulescu, Alberto Martin, and Laura McGary. The files are associated with a manuscript submitted for publication by Philip Barbulescu et al. The main goal of this dataset was to validate CTLH and UNG2 as interactors of FAM72A. Alberto Martin (alberto.martin@utoronto.ca) is the corresponding authors of the manuscript; Anne-Claude Gingras should be contacted for questions on this dataset (gingras@lunenfeld.ca) This submission is associated with 3 Supplementary Files (in addition to this README file) Table 1 describes the composition of this dataset Table 2 lists all the peptide identification evidence Table 3 lists the SAINTexpress interactions [doi:10.25345/C5MK65M0C] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: FAM72A ; Affinity purification ; UNG2 ; GID/CLTH complex ; Antibody maturation

Contact

Principal Investigators:
(in alphabetical order) 		Anne-Claude Gingras, LTRI, Canada
Submitting User: gingraslab

Publications

Philip Barbulescu, Chetan K. Chana, Matthew K. Wong, Ines Ben Makhlouf, Jeffrey P. Bruce, Yuqing Feng, Alexander F. A. Keszei, Cassandra Wong, Rukshana Mohamad-Ramshan, Laura C. McGary, Mohammad A. Kashem, Derek F. Ceccarelli, Stephen Orlicky, Yifei Fang, Huihui Kuang, Mohammad Mazhab-Jafari, Rossanna C. Pezo, Ashok S. Bhagwat, Trevor J. Pugh, Anne-Claude Gingras, Frank Sicheri & Alberto Martin.
FAM72A degrades UNG2 through the GID/CTLH complex to promote mutagenic repair during antibody maturation.
Barbulescu, P., Chana, C.K., Wong, M.K. et al. FAM72A degrades UNG2 through the GID/CTLH complex to promote mutagenic repair during antibody maturation. Nat Commun 15, 7541 (2024). https://doi.org/10.1038/s41467-024-52009-x.

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 Browse Results
 
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.