MassIVE MSV000083746

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Comparison of proteomic profiles from fresh and paraformaldehyde-fixed rat brain cells

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Description

Protein spectra for fresh and paraformaldehyde (PFA)-fixed rat brain cell suspensions. The purpose of this experiment was to determine if/what differences exist when characterizing proteomic signatures from fresh (Fr) or fixed (PFA) samples. Brain cells were isolated from a single rat and were split into 6 replicates in which half were fixed and half remained fresh (N = 3, n = 5). [doi:10.25345/C58H05] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: Brain ; paraformaldehyde

Contact

Principal Investigators:
(in alphabetical order) 		Eric Darling, Brown University, USA
Submitting User: jsadick

Publications

Sadick JS, Crawford LA, Cramer HC, Franck C, Liddelow SA, Darling EM.
Generating Cell Type-Specific Protein Signatures from Non-symptomatic and Diseased Tissues.
Ann Biomed Eng. 2020 Aug;48(8):2218-2232. Epub 2020 Apr 17.

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Identification 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.

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Number of distinct peptide sequences (including modified variants or peptidoforms) reported across all analyses (original submission and reanalyses) associated with this dataset.

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Total number of peptide-spectrum matches (i.e. spectrum identifications) reported across all analyses (original submission and reanalyses) associated with this dataset.

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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.