MassIVE MSV000097780

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Engineered Probiotics Overexpressing Lactate Dehydrogenase Suppress Colorectal Cancer Tumorigenesis

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Description

This dataset contains GC-MS metabolomics profiles of bacterial culture supernatants from both engineered and wild-type probiotic strains. Specifically, the strains include Bifidobacterium longum pBS423, B. longum pBS423-ldh, Lactobacillus plantarum pLH01, pLH01-ldh, and wild-type strains of B. longum subsp. infantis, B. longum subsp. longum, B. bifidum, L. plantarum, and Escherichia coli. Culture supernatants were collected, filtered (0.22 um), vacuum-dried, and derivatized using methoxyamine hydrochloride and BSTFA. GC-MS analysis was performed using a Thermo Trace 1310 gas chromatograph coupled to a Thermo ISQ LT single quadrupole mass spectrometer. The dataset includes raw data files in NetCDF (.cdf) format, processed peak tables, metabolite identification results, and experimental metadata. Quantitative analysis was performed across biological replicates, and standard compounds such as indole-3-lactic acid and 3-phenyllactic acid were included at multiple concentrations for calibration. Quality control (QC) samples were analyzed periodically to ensure analytical reproducibility. [doi:10.25345/C5X05XR2S] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: Bifidobacterium ; Lactate dehydrogenase ; Indole-3-lactic acid ; 3-Phenyllactic acid ; Live biotherapeutic products ; DatasetType:Metabolomics

Contact

Principal Investigators:
(in alphabetical order) 		Minhye Shin, Inha university, Republic of Korea
Submitting User: donggyukim
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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.

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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.