MassIVE MSV000088431

Imported Reanalysis Dataset Public PXD006656

Mapping the spatial proteome of metastatic cells in colorectal cancer

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Description

Here, we aimed to study metastasis mechanisms using spatial proteomics applied to the KM12 cell model of metastasis. KM12 cells were metabolically labelled using SILAC. SILAC has been successfully used for the analysis of proteome turnover and for the identification of changes in proteome localization as a consequence of DNA damage.10,23-24 Subcellular fractionation of the KM12 cells into five subcellular fractions corresponding to cytoplasm (CEB), plasma, mitochondria and ER/golgi membranes (MEB), nuclear (NEB), chromatin-bound (NEB-CBP) and cytoskeletal proteins (PEB) contributed to clarify the molecular mechanisms underlying CRC metastasis. Protein abundance and localization were measured in parallel for the five separate subcellular fractions, providing a map draft of the spatially deregulated protein complexes and networks in CRC metastasis. [doi:10.25345/C51G45] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: Subcellular fraction ; Colorectal cancer ; Silac ; Lc-ms/ms

Contact

Principal Investigators:
(in alphabetical order) 		Ignacio Casal, Functional Proteomics Laboratory, Centro de Investigaciones Biologicas, CIB-CSIC, Madrid, Spain, N/A
Submitting User: ccms

Publications

Mendes M, Peláez-García A, López-Lucendo M, Bartolomé RA, Calviño E, Barderas R, Casal JI.
Mapping the Spatial Proteome of Metastatic Cells in Colorectal Cancer.
Proteomics.

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Identification Results
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Quantification 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.

"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.

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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.