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MetabolomicsProtein-metabolite interactomics of carbohydrate metabolism reveal regulation of lactate dehydrogenase

Metabolic networks are interconnected and influence diverse cellular processes. The protein-metabolite interactions that mediate these networks are frequently low affinity and challenging to systematically discover. We developed mass spectrometry integrated with equilibrium dialysis for the disco...

2023-08-07 | MTBLS7237 | MetaboLights
MetabolomicsPROMIS, global analysis of PROtein-Metabolite Interactions using Size separation in Arabidopsis thaliana
Small molecules not only represent cellular building blocks and metabolic intermediates, but also regulatory ligands and signaling molecules that interact with proteins. Although these interactions affect cellular metabolism, growth, and development, they have been largely understudied. Herein, we d...
2018-07-19 | MTBLS94 | MetaboLights
MetabolomicsThe patatin-like protein PlpD forms novel structurally dynamic homodimers in the Pseudomonas aeruginosa outer membrane

Members of the Omp85 superfamily of outer membrane proteins (OMPs) found in Gram-negative bacteria, mitochondria and chloroplasts are characterized by a distinctive 16-stranded β-barrel transmembrane domain and at least one periplasmic POTRA domain. All previously studied Omp85 proteins promote c...

2025-12-08 | MTBLS9803 | MetaboLights
TranscriptomicsAnalysis of fetal livers from male mice after protein-restricted diet in mothers
Prenatal nutrition as influenced by nutritional status of the mother has been identified as a determinant of adult disease. Feeding low-protein diets during pregnancy in rodents is a well-established model to induce “programming” events in offspring. We hypothesized that protein restriction would in...
ORGANISM(S): Mus musculus 
2009-11-02 | E-GEOD-15280 | biostudies-arrayexpress
MetabolomicsRibosomal mistranslation leads to silencing of the unfolded protein response and increased mitochondrial biogenesis

Translation fidelity is the limiting factor in the accuracy of gene expression. With an estimated frequency of 10-4, errors in mRNA decoding occur in a mostly stochastic manner. Little is known about the response of higher eukaryotes to chronic loss of ribosomal accuracy as per an increase in the...

2019-09-17 | MTBLS106 | MetaboLights
TranscriptomicsProtein P Vs Protein G
Rationale: Respiratory syncytial virus (RSV) and Streptococcus pneumoniae are major respiratory pathogens. Co-infection with RSV and S. pneumoniae is associated with severe and often fatal pneumonia but the molecular basis for this remains unclear. Objectives: To determine if interaction between RS...
ORGANISM(S): Streptococcus pneumoniae D39 
2014-06-21 | E-GEOD-58424 | biostudies-arrayexpress
ClinicalWhey Protein-based Enteral Nutrition Support to Improve Protein Economy in Surgical Patients
A prospective, randomized and controlled study is proposed to establish whether an enteral nutrition support regimen based on pressurized whey protein and glucose improves the postoperative utilization of amino acid substrates compared to a drink based on glucose alone. The kinetics of protein metab...
2100821 | ecrin-mdr-crc
TranscriptomicsRNAi knock down of RET finger protein/ Tripartite protein in human osteosarcoma cell lines and analysis of Retinoblastoma protein dependent transcriptional changes
Analysis of Retinoblastoma protein (Rb) (Hs.408528) dependent transcriptional changes following siRNA mediated ablation of the RET finger protein/ Tripartite protein (RFP/TRIM27) (Hs.440382). Common reference design, two biological replicates with two technical replicates each.
ORGANISM(S): Homo sapiens 
2005-06-02 | E-MEXP-278 | biostudies-arrayexpress
ProteomicsDynamic profiling of the protein life cycle in response to pathogens (protein)
Protein expression is regulated by production and degradation of mRNAs and proteins, but their specific relationships remain unknown. We combine measurements of protein production and degradation and mRNA dynamics to build a quantitative genomic model of the differential regulation of gene expressio...
ORGANISM(S): Mus musculus 
2015-03-06 | E-GEOD-59792 | biostudies-arrayexpress
MetabolomicsWhat CHO is made of: Variations in the biomass composition of Chinese hamster ovary cell lines

Background: Cell line specific, genome-scale metabolic models enable rigorous and systematic in silico investigation of cellular metabolism. Such models have recently become available for Chinese hamster ovary (CHO) too. However, a key ingredient, namely an experimentally validat...

2020-07-13 | MTBLS1210 | MetaboLights
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