MassIVE MSV000085005

Complete Public PXD017719

Aregger_C12ORF49_BioID_2020_TripleTOF5600

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Description

This dataset consists of 18 raw MS files and associated peak lists and result files, acquired on AB SCIEX 5600 TripleTOF mass spectrometer operated in Data Dependent Acquisition mode. Samples were generated by Michael Aregger, affinity purification and mass spectrometric acquisition was performed by Zhen-Yuan Lin. Analysis was performed by Anne-Claude Gingras, Cassandra Wong and Zhen-Yuan Lin. The files are associated with a manuscript submitted for publication by Michael Aregger et al. The main goal of this paper was to systematically map genetic interactions for de novo fatty acid synthesis Jason Moffat is the corresponding author of the manuscript (j.moffat@utoronto.ca); 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 (as per iProphet) Table 3 lists the SAINTexpress interactions [doi:10.25345/C5VM3M] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: BioID ; Proximity-dependent biotinylation ; C12ORF49 ; Fatty acid synthesis

Contact

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

Publications

Michael Aregger # 1, Keith A Lawson # 1 2 3, Maximillian Billmann # 4, Michael Costanzo 1, Amy H Y Tong 1, Katherine Chan 1, Mahfuzur Rahman 4, Kevin R Brown 1, Catherine Ross 1, Matej Usaj 1, Lucy Nedyalkova 1, Olga Sizova 1, Andrea Habsid 1, Judy Pawling 5, Zhen-Yuan Lin 5, Hala Abdouni 5, Cassandra J Wong 5, Alexander Weiss 1, Patricia Mero 1, James W Dennis 5, Anne-Claude Gingras 2 5, Chad L Myers 6 7, Brenda J Andrews 8 9, Charles Boone 10 11, Jason Moffat 12 13 14.
Systematic mapping of genetic interactions for de novo fatty acid synthesis identifies C12orf49 as a regulator of lipid metabolism.
Nat Metab . 2020 Jun;2(6):499-513. doi: 10.1038/s42255-020-0211-z. Epub 2020 Jun 1.

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Experimental Design
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Identification Results
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Quantification 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.

"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.