MassIVE MSV000097140

Partial Public PXD060928

HX study on SMARCA2/A4(BRM/BRG1) degraders acting via the recruitment of FBXO22

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Description

Filetypes: DATE_PeptideReference_MSMS.csv - contains the identity of peptides and expected retention times to be tracked over the experiment. These are determined from an MSMS experiment, see *MSMS* in the filename. Use file dates for file associations. Files are included for experiments involving APO FBXO22 +/- BRM or BRM+Ligand. All data uses the FBXO22.fasta sequence file. Raw Mass Spectrum Files: There are three types, all have been converted to MZXML from Thermo .RAW format. -One MSMS file (producing the identifications to be tracked through the experiment) -Pool files - ms-only files of unlabeled peptides run on the day of the experiment. -Timeseries Files - ms-only files containing deuterated timepoints. *Note, there may be two sets of apo files as experiments may be collected at different dates and a new apo dataset is often collected. Search Engine Files: ExMS 2 software used to produce "finaltables" result files: PMID: 31082210, DOI: 10.1021/acs.analchem.9b01682 A unique identifier is included in each type of result file, provided below. *MSMS* - file contains the identity of peptides and expected retention times to be tracked over the experiment. These are determined from an MSMS experiment, see *MSMS* in the filename. Use file dates for file associations. *Pool* - Output from ExMS2 on reference ms-only unlabeled data *sec* - Timepoint from the experiment. Other information is provided in the filename of each result file, note that the name of the raw mass spectrum file used to produce the result file is included in the result file name. [doi:10.25345/C56Q1SV73] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: SMARCA2/A4 ; FBXO22 ; Hydrogen/deuterium exchange ; DatasetType:Other (Hydrogen/deuterium exchange)

Contact

Principal Investigators:
(in alphabetical order) 		Benjamin Walters, Genentech, United States
Submitting User: btwalters
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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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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.