MassIVE MSV000082313

Complete Public PXD009616

The plasma proteome of Rufous-collared sparrows (Zonotrichia capensis) from valleys of the Atacama Desert (Chile)

Subscribe Comment Reanalyze Spectra Compare Results Add Reanalysis

Description

The plasma proteome of sparrows from the Atacama desert was identified using bottom up proteomics by online nanoLC tandem mass spectrometry. Seasonal and geographic effects on the plasma proteome were investigated. All experiments and sample collections were performed by the team of Dr. Paulina Gonzalez-Gomez. Proteomics sample preparation and biological mass spectrometry were performed in the laboratory of Prof. Dietmar Kueltz at UC Davis [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: ecological proteomics ; birds ; plasma ; extreme emvironment ; LC-MS/MS ; environmental adaptation

Contact

Principal Investigators:
(in alphabetical order) 		Dietmar Kueltz, University of California, Davis, USA
Paulina Gonzalez-Gomes, Universidad Autonoma de Chile, Chile
Submitting User: dkueltz

Publications

González-Gómez PL, Echeverria V, Estades CF, Perez JH, Krause JS, Sabat P, Li J, Kültz D, Wingfield JC.
Contrasting seasonal and aseasonal environments across stages of the annual cycle in the rufous-collared sparrow, Zonotrichia capensis: Differences in endocrine function, proteome and body condition.
J Anim Ecol. 2018 Sep;87(5):1364-1382. Epub 2018 Jun 5.

González-Gómez, P., Echeverria, V., Estades, C.F., Perez, J.H., Krause, J.S., Sabat, P., Li, J., Kültz, D., Wingfield, J.C.
Proteome and endocrine traits in relattion to timing of stages of the annual cycle and body condition in seasonal and aseasonal environments.
J. Animal Ecology (in press).

Number of Files:
Total Size:
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:
 
Browse Dataset Files Browse Results
 
FTP Download Link (click to copy):

Species

Instrument

Modifications

- Dataset Reanalyses

+ Dataset History

Click here to queue conversion of this dataset's submitted spectrum files to open formats (e.g. mzML). This process may take some time.

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.