MassIVE MSV000081795

Complete Public PXD008395

Identification and spectral annotation of the threespine stickleback gill proteome

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Description

Gill proteome samples from four populations of threespined sticklebacks; Six biological replicates each for 4 different populations: Bodega Harbor, CA (fully plated, marine), Lake Solano (low-plated, freshwater), Laguna de la Bocana del Rosario, Mexico (low plated, brackish water, warm-adapted), Westchester Lagoon, AK (fully plated, brackish water); More information and results of data analysis at CAMP Proteome, accession number CAMPDDA00023 (https://kueltzlab.ucdavis.edu/CAMP_dda_profiles.cfm?AC=CAMPDDA00023). [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: Ecological proteomics ; Stress response ; Fish biology ; Biochemical adaptation ; Population comparison ; DDA LC-MS/MS ; Gill

Contact

Principal Investigators:
(in alphabetical order) 		Dietmar Kueltz, University of California, Davis, USA
Submitting User: dkueltz

Publications

Li J, Levitan B, Gomez-Jimenez S, Kültz D.
Development of a Gill Assay Library for Ecological Proteomics of Threespine Sticklebacks (Gasterosteus aculeatus).
Mol. Cell Proteomics. 2018 Nov;17(11):2146-2163. Epub 2018 Aug 9.

J. Li, B.B. Levitan, S. Gomez-Jimenez and D. Kültz.
Development of a gill assay library for ecological proteomics of threespine sticklebacks (Gasterosteus aculeatus).
Mol. Cell. Proteomics (2018) in press.

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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.

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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.

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Number of distinct protein accessions reported across all analyses (original submission and reanalyses) associated with this dataset.

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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.