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ProteomicsReanalysis of dataset PXD003791: “MuSt multiomics - Integrated multi-omics of the human gut microbiome in a case study of familial type 1 diabetes”
This project contains raw data, intermediate files and results is a re-analysis of the publicly available dataset from the PRIDE dataset PXD003791. The RAW files were processed using ThermoRawFileParser, SearchGUI and PeptideShaker through standard settings (see ‘Data Processing Protocol’). This rea...
ORGANISM(S): Homo sapiens (Human) 
2022-06-17 | PXD034617 | Pride
Data integration Metaproteomics Reanalysis 
TranscriptomicsComparative transcriptome analysis of transporters, phytohormone and lipid metabolism pathways in response to arsenic stress in rice (Oryza Sativa L.)
Arsenic (As) is a carcinogenic metalloid that is a contaminant widely polluting rice paddy soils around the world. In order to gain better insight into molecular mechanism of rice exposed to As(III) stress, we used next-generation sequencing technology to acquire global transcriptome alteration and ...
ORGANISM(S): Oryza sativa Japonica Group 
2013-01-09 | E-GEOD-36696 | biostudies-arrayexpress
ProteomicsReanalysis of dataset PXD020692: “Washington state shellfish hatchery microbiome”
This project contains raw data, intermediate files and results is a re-analysis of the publicly available dataset from the PRIDE dataset PXD020692. The RAW files were processed using ThermoRawFileParser, SearchGUI and PeptideShaker through standard settings (see ‘Data Processing Protocol’). This rea...
ORGANISM(S): marine metagenome 
2023-11-03 | PXD038539 | Pride
Data integration Metaproteomics Reanalysis 
ProteomicsReanalysis of dataset PXD005780: “Relating human gut metagenome and metaproteome”
This project contains raw data, intermediate files and results is a re-analysis of the publicly available dataset from the PRIDE dataset PXD005780. The RAW files were processed using ThermoRawFileParser, SearchGUI and PeptideShaker through standard settings (see ‘Data Processing Protocol’). This rea...
ORGANISM(S): human gut metagenome 
2022-05-04 | PXD032303 | Pride
Data integration Metaproteomics Reanalysis 
ProteomicsThe landscape of protein expression in cancer based on public proteomics data
This project contains raw data, intermediate files and results used to create the integrated map of protein expression in human cancer (including data from cell lines and tumours). The map is based on joint reanalysis of 11 large-scale quantitative proteomics studies. The datasets were primarily ret...
ORGANISM(S): Homo sapiens (Human) 
2019-07-18 | PXD013455 | Pride
Tumours Meta-analysis Cell lines Reanalysis Public data reuse Quantification 
UnknownComparative effectiveness of simultaneous integrated boost vs sequential intensity-modulated radiotherapy for oropharyngeal or hypopharyngeal cancer patients: A population-based propensity score-matched analysis.
Not available
S-EPMC6940180 | biostudies-literature
UnknownPRIDE Inspector Toolsuite: Moving Toward a Universal Visualization Tool for Proteomics Data Standard Formats and Quality Assessment of ProteomeXchange Datasets.
Not available
S-EPMC4762524 | biostudies-literature
UnknownConcurrent triplication and uniparental isodisomy: evidence for microhomology-mediated break-induced replication model for genomic rearrangements.
Not available
S-EPMC4266739 | biostudies-literature
ProteomicsPhospho-proteome profiling in human induced pluripotent stem cells and derived human neurons reveals targets of TBK1 in ALS/FTD-1 associated autophagy networks
TBK1 (TANK-binding kinase 1) is a ubiquitously expressed IKK-related kinase implicated in diverse cellular processes, including interferon signaling, apoptosis, and autophagy. Loss-of-function variants in TBK1 are strongly associated with amyotrophic lateral sclerosis (ALS) and frontotemporal dement...
ORGANISM(S): Homo sapiens (Human) 
2025-09-11 | PXD068150 | Pride
Autophagy Neurons Tnk1 Phosphorylation 
UnknownSolid-state synthesis of ordered mesoporous carbon catalysts via a mechanochemical assembly through coordination cross-linking.
Not available
S-EPMC5477501 | biostudies-literature
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