MassIVE MSV000092784

Partial Public PXD044943

In vitro phosphorylation of trypsin-digested K562 cell lysate by TAM family kinases

Description

K562 cell lysate was digested with trypsin, dephosphorylated with lambda phosphatase, and treated in an in vitro kinase reaction with Axl, Mer or Tyro3 kinase, alongside a control reaction for each that contained no kinase. Samples were phosphoenriched with the SMOAC approach (TiO2 and FeNTA) and analyzed on an Orbitrap-Velos. Peptides were identified using PEAKS Studio X Pro. [doi:10.25345/C5513V612] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: kinase ; phosphopeptide ; AXL ; MERTK ; TYRO3 ; KALIP

Contact

Principal Investigators:
(in alphabetical order)
Laurie Parker, University of Minnesota, USA
Submitting User: llparker

Publications

Widstrom NE, Andrianov GV, Heier JL, Heier C, Karanicolas J, Parker LL.
Novel Substrate Prediction for the TAM Family of RTKs Using Phosphoproteomics and Structure-Based Modeling.
ACS Chem Biol. 2024 Jan 19;19(1):117-128. Epub 2023 Dec 30.

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Experimental Design
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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.

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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.

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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.

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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.

"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.

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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.