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ProteomicsMuSt multiomics - Integrated multi-omics of the human gut microbiome in a case study of familial type 1 diabetes
Multiomics of faecal samples collected from individuals in families with multiple cases of type 1 diabetes mellitus (T1DM) over 3 or 4 months. Metagenomic and metatranscriptomic sequencing and metaproteomics were carried out, as well as whole human genome sequencing. Phenotypic data is available.
ORGANISM(S): mixed culture metagenome 
2016-08-22 | PXD003791 | Pride
Human microbiome Gastrointestinal Faecal Type 1 diabetes Families 
MetabolomicsIntegration of time-series meta-omics data reveals how microbial ecosystems respond to disturbance
The development of reliable, mixed-culture biotechnological processes hinges on understanding how microbial ecosystems respond to disturbances. Here we reveal extensive phenotypic plasticity and niche complementarity in oleaginous microbial populations from a biological wastewater treatment plant. W...
2021-04-06 | MTBLS2021 | MetaboLights
ProteomicsMuSt multiomics
Multiomics of faecal samples collected from individuals in families with multiple cases of type 1 diabetes mellitus (T1DM) over 3 or 4 months. Metagenomic and metatranscriptomic sequencing and metaproteomics were carried out, as well as whole human genome sequencing. Phenotypic data is available.
ORGANISM(S): Mixed Culture Metagenome (ncbitaxon:1306859) 
2017-10-19 | MSV000081630 | MassIVE
MetabolomicsA microfluidics-based in vitro model of the gastrointestinal human-microbe interface
Changes in the human gastrointestinal microbiome are associated with several diseases. To infer causality, experiments in representative models are essential, but widely used animal models exhibit limitations. Here we present a modular, microfluidics-based model (HuMiX, human–microbial crosstalk), w...
2017-07-28 | MTBLS328 | MetaboLights
ProteomicsSynergistic effect of short- and long-read sequencing on functional meta-omics
Evaluation of short-read-only, long-read-only, and hybrid assembly approaches on metagenomic samples demonstrating how they affect gene and protein prediction which is relevant for downstream functional analyses. For a human gut microbiome sample, we use complementary metatranscriptomic, and metapro...
ORGANISM(S): human gut metagenome 
2022-02-17 | PXD025505 | Pride
Metaproteomics Gdb_metap Functional omics Long-reads 
ProteomicsAlterations of oral microbiota and impact on the gut microbiome in type 1 diabetes mellitus revealed by multi-omic analysis
Background Alterations of the gut microbiome have been linked to multiple chronic diseases. However, the drivers of such changes remain largely unknown. The oral cavity acts as a major route of exposure to exogenous factors including pathogens, and processes therein may affect the communities in the...
ORGANISM(S): human metagenome 
2022-10-05 | PXD031579 | Pride
Microbiome   metaproteomics   type 1 diabetes 
MetabolomicsMetabolome analysis via an HPLC-ESI-MS-based experimental and computational pipeline for chronic nephron toxicity profiling
Untargeted metabolomics has the potential to improve the predictivity of in vitro toxicity models and therefore may aid the reduction of expensive and laborious animal models. Here we describe a chronic nephrotoxicity study conducted on a human renal proximal tubular epithelial cell line (RPTEC/TERT...
2015-09-07 | MTBLS140 | MetaboLights
ProteomicsSystems Biology of Lipid Accumulating Organisms
Characterization of microbial communities at the genomic, transcriptomic, proteomic and metabolomic levels, with a special interest on lipid accumulating bacterial populations, which are naturally enriched in biological wastewater treatment systems and may be harnessed for the conversion of mixed li...
ORGANISM(S): wastewater metagenome 
2020-08-19 | PXD013655 | Pride
Metaproteomics  activated sludge  time series  lipid accumulation  crispr  metagenomics  phages  plamids 
ProteomicsIntegrated multi-omics highlights alterations of gut microbiome functions in prodromal and idiopathic Parkinson’s disease
Patients with Parkinson’s disease (PD) exhibit differences in their gut microbial community compared to healthy subjects. Although alterations have been most commonly described as differential abundance of bacteria, fewer studies have focused on the functionnal aspect of these changes. Causal and me...
ORGANISM(S): human gut metagenome 
2025-10-13 | PXD031457 | Pride
Microbiome  human   parkinson  archaea 
TranscriptomicsMicroarray mRNA data of RPTEC/TERT1 cells exposed to nephrotoxic chemicals ochratoxin A and potassium bromate
Human renal proximal tubule cells (RPTEC/TERT1) were exposed to one of two nephrotoxic chemicals, ochratoxin A (OA) or potassium bromate (KB), or a vehicle control (CT). The exposure regime was a repeated dosing every 24h for 5 days followed by chemical washout and 3 days of recovery with medium ren...
ORGANISM(S): Homo sapiens 
2018-09-16 | E-MTAB-7048 | biostudies-arrayexpress
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