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ProteomicsSpectral entropy as a measure of the metaproteome complexity
The diversity and complexity of the microbiome's genomic landscape are not always mirrored in its proteomic profile. Despite the anticipated proteomic diversity, observed complexities of microbiome sample are often lower than expected. Two main factors contribute to this discrepancy: limitations in ...
ORGANISM(S): gut metagenome 
2024-05-27 | PXD050781 | Pride
Bioinformatics Spectral entropy Metaproteomics 
ProteomicsA human gut microbiome treated in vitro with Diclofenac
One individual microbiome was cultured with or without the presence of diclofenac (an NSAID drug) in triplicates using RapidAIM assay.
ORGANISM(S): human gut metagenome 
2022-06-23 | PXD033624 | Pride
In vitro culture Drug treatment Human gut microbiome 
ProteomicsQuantitative proteomic analysis of hippocampal tissues from mice treated with a CK1δ/ε inhibitor
Hippocampal tissues from 3xTg-AD mice treated with a CK1δ/ε inhibitor or vehicle, and non-transgenic mice treated with vehicle, were harvested and processed for proteomic analysis using label-free quantification.
ORGANISM(S): Mus musculus (Mouse) 
2019-07-30 | PXD012281 | Pride
Proteomics Lfq Mouse Lc-ms/ms 
ProteomicsDetergents assisted glycoprotein capture
A detergents assisted glycoprotein capture method was developed to increase the coverage of N-glycoproteome of various samples.Application of this approach in the larger scale N-glycoproteomics analysis of the HEK 293 cell membrane led to the identification of 2253 unique N-glycosites from 953 prote...
ORGANISM(S): Homo sapiens (Human) 
2016-12-23 | PXD003485 | Pride
Lc-ms Human serum N-glycoproteome Hek 293 
ProteomicsIn-vitro human gut microbiota culture with added sugars
Three human gut microbiome samples from different individuals were cultured in an optimized culture medium with or without the presence of different sugars (10 mM glucose, 20 mM fructose, 10 mM glucose + 20 mM fructose, or 10 mM kestose). Samples were cultured in technical triplicates, and were take...
ORGANISM(S): human gut metagenome 
2024-06-16 | PXD037925 | Pride
Human gut microbiome In vitro study Metaproteomics 
ProteomicsIntestinal N-glycomics in pediatric ulcerative colitis
This project used glycomics approach to study the N-glycan present at the intestinal mucosal-luminal interface of pediatric UC patients.
ORGANISM(S): Homo sapiens (Human) 
2022-03-01 | PXD026327 | Pride
Microbiome Ibd Glycomics Ulcerative colitis 
ProteomicsA novel strategy of profiling protein methylation on lysine and arginine
Protein methylation is involved in different processes including gene expression regulation, epigenetics, and nucleotide metabolism. Identification of methylated proteins is difficult as methyl groups are small, and do not introduce significant changes in protein hydrophobicity or charge state. The ...
ORGANISM(S): Homo sapiens (Human) 
2016-08-16 | PXD001689 | Pride
Methylation 
ProteomicsDeep gut metaproteomics - A deep metaproteomics approach for the study of human microbiomes
Stool samples were collected from 4 children and subjected to deep gut metaproteomics analysis for in-depth understanding the functional compositions of human gut mcirobiome.
ORGANISM(S): human gut metagenome 
2017-08-10 | PXD005619 | Pride
Strain Microbiome Deep Metaproteomics 
ProteomicsEffects of 5 drugs on the human gut microbiome.
We processed a human stool sample and cultured the processed microbiome in vitro under anaerobic condition for 48 hours using the rapidAIM assay. The microbiome was treated with either azathioprine, ciprofolxacin, diclofenac, nicatidine, paracetamol or control DMSO. Each drug was used at three diffe...
ORGANISM(S): human gut metagenome 
2022-07-29 | PXD024845 | Pride
Metaproteomics Human gut microbiome 
ProteomicsMS1-only data acquisition of human gut microbiome data treated with 5 drugs at different concentrations.
We tested the ability of MS1-only data to identify the effects of drugs at varying concentrations on a human gut microbiome. We processed a human stool sample and cultured the processed microbiome in vitro under anaerobic condition for 48 hours using the rapidAIM assay. The microbiome was treated wi...
ORGANISM(S): human gut metagenome 
2022-07-29 | PXD024815 | Pride
Ms1-only Human gut microbiome 
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