MassIVE MSV000087835

Complete Public PXD027371

Trypanosoma cruzi proteins identified in pull-down assays aimed to characterize RNA proteins interacting with LYT1 mRNAs

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Description

This project was aimed to identify proteins interacting with the untranslated regions (UTRs) of the mRNAs transcribed from the Trypanosoma cruzi LYT1 gene. LYT1 protein is a T. cruzi virulence factor, which is expressed as two isoforms: kLYT1 and mLYT1. The proteomic data associated with this project derive from three biological replicas of pull-down assays in which particular regions of the LYT1 mRNAs (5 UTR kLYT1, 5 UTR mLYT1, and 3 UTRs types I and II) were used as baits. These RNA baits were incubated with crude extracts from either epimastigotes or trypomastigotes of the T. cruzi 058PUJ (DTU I) strain. After washing out of non-bound proteins, the remaining proteins were analyzed by liquid chromatography coupled to mass spectrometry (LC/MS). This project contains the LC/MS raw spectra generated in these assays. [doi:10.25345/C54C29] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: LC/MS, pull-down, RNA Binding Proteins, Trypanosoma cruzi, Untranslated regions

Contact

Principal Investigators:
(in alphabetical order) 		Concepcion Judith Puerta Bula, Pontificia Universidad Javeriana, Colombia
Submitting User: cpuerta
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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.

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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.