MassIVE MSV000087796

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Protein phosphorylation of IFNgR1 knockout B16 cells

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Description

B16 cells were transduced by lentivirus encoding scramble shRNA and engineered to obtain two IFNgR1-knockout cell clones. Proteins from these cells were digested by TPCK-trypsin. Equal amount of peptides were labelled with TMTpro reagents and pooled. Phosphopeptides were enriched from 90% of the pooled peptides using TiO2 beads, and fractionated with the Pierce high pH reversed-phase peptide fractionation kit to get six fractions. The remaining 10% pooled peptides (called total peptides) were fractionated similarly to get five fractions. Peptides from each fraction were analyzed using HPLC-ESI-MS/MS. Some fractions were analyzed twice. TMTpro channels 1-4: four independent samples of scramble shRNA group; channels 5-8: four independent samples of IFNgR1 knockout cell clone 1; channels 9-12: four independent samples of IFNgR1 knockout cell clone 2; channels 13-16: samples not related to this study. [doi:10.25345/C51R72] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: B16, IFNgR1, Knockout, phosphorylation

Contact

Principal Investigators:
(in alphabetical order) 		Lewis Zhichang Shi, The University of Alabama at Birmingham, USA
Submitting User: Xiangmin_Zhang
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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 biological replicates across all analyses (original submission and reanalyses) associated with this dataset.

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Number of distinct technical replicates across all analyses (original submission and reanalyses) associated with this dataset.

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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.

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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.

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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.