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TranscriptomicsTranscription profiling of stationary phase E.coli wild type and crl::cat mutant strains to identify Crl-regulated genes
We wished to identify Crl-regulated genes in stationary phase in E.coli, and whether those overlap with the previously identified regulon of RpoS. Therefore wildtype E.coli (MC4100) and its isogenic crl::cat mutant were grown at 30oC. Total RNA was extracted at on OD (578nm) of 4 (during entry into ...
ORGANISM(S): Escherichia coli 
2007-01-01 | E-MEXP-720 | biostudies-arrayexpress
ProteomicsEscherichia coli sucrose gradient fractionation
We studied localization of E. coli membrane proteome using sucrose gradient fractionation combined with quantitative MS.
ORGANISM(S): Escherichia coli 
2020-02-19 | PXD016403 | Pride
Escherichia coli 
ProteomicsNlpI scaffolds hydrolases within peptidoglycan multi-enzyme complexes in Escherichia coli
We performed enrichment of nlpI to study its function in Escherichia coli.
ORGANISM(S): Escherichia coli 
2020-02-25 | PXD016825 | Pride
Affinity chromatography Escherichia coli 
ProteomicsThermal proteome profiling of ticagrelor in Staphylococcus aureus
We performed two dimensional thermal proteome profiling (2D-TPP) of ticagrelor to study its impact in Staphylococcus aureus.
ORGANISM(S): Staphylococcus aureus 
2024-01-26 | PXD036188 | Pride
Target engagement Ticagrelor Drugs Staphylococcus aureus Thermal proteome profiling 
ProteomicsThermal proteome profiling of nlpI mutants in Escherichia coli
We performed two dimensional thermal proteome profiling (2D-TPP) of nlpI mutants to study its function in Escherichia coli.
ORGANISM(S): Escherichia coli 
2020-02-25 | PXD016819 | Pride
Escherichia coli Knock-out Thermal proteome profiling 
ProteomicsThermal proteome profiling in of CA-074me
We performed thermal proteome profiling (TPP) to study changes to protein thermal stability and abundance of CA-074me (cathepsin inhibitor) in RAW264.7 macrophages after Salmonella typhimurium infection.
ORGANISM(S): Mus musculus (Mouse) Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) 
2020-02-07 | PXD016086 | Pride
Target engagement Cathepsin inhibitor Salmonella Thermal proteome profiling 
MetabolomicsConsistency across multi-omics layers in a drug-perturbed gut microbial community
Multi-omics analyses are increasingly employed in microbiome studies to obtain a holistic view of molecular changes occurring within microbial communities exposed to different conditions. However, it is not always clear to what extent each omics data type contributes to our understanding of the comm...
2022-12-08 | MTBLS3129 | MetaboLights
ProteomicsAP-qMS of retron proteins in Salmonella enterica
We performed affinity purification coupled to quantitative mass spectrometry (AP-qMS) for proteins belonging to retrons of Salmonella enterica. We quantified the proteome of rcaT point mutants in Salmonella enterica. We quantified the proteome of phage P1vir in E. coli.
ORGANISM(S): Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) Escherichia coli 
2022-06-13 | PXD022376 | Pride
Ap-qms Retron Salmonella enterica 
ProteomicsGlobal mapping of Salmonella enterica-host protein-protein interactions during infection
Intracellular bacterial pathogens inject a cocktail of effector proteins into host cells to hijack diverse cellular processes and promote their survival and proliferation. Salmonella enterica serovar Typhimurium (STm) uses two Type 3 secretion system (T3SS) to deliver a suite of effector proteins in...
ORGANISM(S): Homo sapiens (Human) Mus musculus (Mouse) 
2021-06-25 | PXD018375 | Pride
Bacterial pathogen Salmonella Effectors Ap/ms 
TranscriptomicsSelective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo
As nascent polypeptides exit ribosomes, they are engaged by a series of processing, targeting and folding factors. Here we present a selective ribosome profiling strategy that enables global monitoring of when these factors engage polypeptides in the complex cellular environment. Studies of the Esch...
ORGANISM(S): Escherichia coli 
2011-12-09 | E-GEOD-33671 | biostudies-arrayexpress
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