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ProteomicsBenchmarking the Orbitrap Tribrid Eclipse for Next Generation Multiplexed Proteomics
The rise of sample multiplexing in quantitative proteomics for the dissection of complex phenotypic comparisons has been advanced by the development of ever more sensitive and robust instrumentation. Here, we evaluated the utility of the Orbitrap Eclipse Tribrid mass spectrometer (advanced quadrupol...
ORGANISM(S): Homo sapiens (Human) 
2022-01-07 | PXD016766 | Pride
Real-time search Quantitative proteomics Eclipse Turbotmt Precursor fit filter Tmt Orbitrap Instrumentation 
TranscriptomicsSystematic analysis of a human renal transcript dataset
Glomerular diseases account for the majority of cases with chronic renal failure. Several genes have been identified with key relevance for glomerular function. Quite a few of these genes show a specific or preferential mRNA expression in the renal glomerulus. To identify additional candidate genes ...
ORGANISM(S): Homo sapiens 
2010-07-19 | E-GEOD-21785 | biostudies-arrayexpress
ProteomicsAssessment of sample preparation bias in mass spectrometry-based proteomics
For mass spectrometry-based proteomics, the selected sample preparation strategy is a key determinant for information that will be obtained. However, the corresponding selection is often not based on a fit-for-purpose evaluation. Here we report a comparison of in-gel (IGD), in-solution (ISD), on-fil...
ORGANISM(S): Homo sapiens (Human) 
2018-04-06 | PXD008493 | Pride
Parotid gland Proteomics Palatine tonsils Nasal polyps Sample preparation 
UnknownBenchmarking the Orbitrap Tribrid Eclipse for Next Generation Multiplexed Proteomics.
Not available
S-EPMC7295122 | biostudies-literature
TranscriptomicsStudy of ecs mutation
In this study we mutated the ecsAB operon in two different Staphylococcus aureus strains, Newman and LS-1, and performed a wide characterization of phenotypic effects of the mutations. A growth defect, increased autolysis and lysostaphin sensitivity, decreased levels of cell wall proteins and altere...
ORGANISM(S): Staphylococcus aureus 
2011-01-01 | E-GEOD-22353 | biostudies-arrayexpress
ProteomicsA mouse model of Fragile X Syndrome analyzed by quantitative proteomics: a comparison of methods
We have compared the performance of seven different strategies in the analysis of a mouse model of Fragile X Syndrome, involving the knockout of the fmr1 gene that is the leading cause of autism spectrum disorder. Focusing on the cerebellum, we show that Data-Independent Acquisition (DIA) and the TM...
ORGANISM(S): Mus musculus (Mouse) 
2023-08-21 | PXD039885 | Pride
Quantitative proteomics Boxcar Complementary ion quantification Dia Method comparison Label-free Tmt labeling Mouse brain proteomics Fragile x syndrome 
TranscriptomicsGlobal transcriptome analysis of the pH regulator pacC in Colletotrichum gloeosporioides
Colletotrichum gloeosporioides, a widely distributed economically important agent in postharvest fruit disease thrives by massive secretion of ammonia to alkalize its environment and activate its pathogenicity genes. We sequenced the C. gloeosporioides transcriptomes of WT and a M-bM-^HM-^FpacC muta...
ORGANISM(S): Colletotrichum gloeosporioides 
2013-11-21 | E-GEOD-41844 | biostudies-arrayexpress
ProteomicsTumor-Derived Exosomal CCT6A Serves as a Matchmaker Introducing Chemokines to Tumor-Associated Macrophages in Pancreatic Ductal Adenocarcinoma
CCT6A is a key subunit of the TRiC complex and is responsible for the folding and maturation of approximately 10% of newly synthesized proteins in cells. Given that different TRiC subunits exhibit substrate specificity, we hypothesized that CCT6A might act as a specific binding subunit. To test this...
ORGANISM(S): Homo sapiens (Human) 
2025-05-26 | PXD057101 | Pride
Human  pdac cell line  lc-ms  knockdown of cct6a 
ProteomicsQueuosine modification of tRNA-Tyr elicits translational reprogramming and enhances growth of Vibrio cholerae with aminoglycosides
Tgt is responsible for the queuosine (Q) modification of the guanine (G) in tRNAs with GUN anti-codon. We have previously identified tgt as being vital for growth in presence sub-lethal concentrations of aminoglycosides in Vibrio cholerae. Here we further explore the role of Q modification in transl...
ORGANISM(S): Vibrio cholerae O1 
2024-12-11 | PXD035297 | Pride
Aminoglycosides Trna-tyr Queuosine modification 
ProteomicsA stop-and-go mechanism controls mitochondrial respiration
Oxidative phosphorylation (OXPHOS) is essential for the synthesis of the vast majority of ATP in eukaryotic cells. It is carried out by multi-protein assemblies that form the electron transport chain (ETC), which are coupled to the mitochondrial ATP synthase, which uses the proton gradient generated...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2024-02-16 | PXD044800 | Pride
Protein complex assembly Mitochondria Complex stoichiometry Mitoribosome Respiratory chain 
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