MassIVE MSV000098703

Partial Public

Raw data for LipidIMEA: Integrating Data-Dependent and Data-Independent Acquisition Methods for Comprehensive Lipidomic Profiling Using Ion Mobility Spectrometry-Mass Spectrometry and Streamlined Data Analysis Workflow

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Description

All lipidomics raw data for: Integrating Data-Dependent and Data-Independent Acquisition Methods for Comprehensive Lipidomic Profiling Using Ion Mobility Spectrometry-Mass Spectrometry and Streamlined Data Analysis Workflow. This includes collection of iterative DDA LC-QTOF MS/MS data and DIA LC-IMS-MS/MS data from Agilent 6560 drift tube IMS platform, and DDA LC-MS/MS data from Orbitrap Lumos platform. Samples include lipid extracts from a set of Comparative Reference (CompRef) materials of protemomics and metabolomics studies by by the Clinical Proteomic Tumor Analysis Consortium, which were patient-derived xenograft (PDX) tumor samples from established basal and luminal breast cancer intrinsic subtypes that were grown in mice. NIST SRM 1950 plasma was also included as a QC sample for test and method optimization. [doi:10.25345/C55T3GC44] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: Lipidomics ; mass spectrometry ; ion mobility spectrometry ; Data-dependent acquisition ; Data-independent acquisition ; DatasetType:Metabolomics ; DatasetType:Other (Lipidomics)

Contact

Principal Investigators:
(in alphabetical order) 		Xueyun Zheng, Pacific Northwest National Laboratory, USA
Submitting User: xueyunzheng100
Number of Files:
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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:
 
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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.