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ProteomicsRe-analysis of: ‘CSF proteome mapping: Human cerebrospinal fluid LC-MS/MS, Part 2’ (PXD000652) to demonstrate the ProteoAnnotator software for mapping identifications to Ensembl genomes
We have performed a re-analysis of PXD000652 - a human proteome CSF fluid sample, originally queried versus UniProt. We have used our ProteoAnnotator package to re-search the data against Ensembl Human build 76 to demonstrate the capability of the pipeline to perform genome mapping on a large scale.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
MSV000080193 | MassIVE
MetabolomicsGut Microbial and Metabolic Responses to Salmonella enterica Serovar Typhimurium and Candida albicans

The gut microbiota is increasingly recognized for playing a critical role in human health and disease, especially in conferring resistance to both virulent pathogens such as Salmonella, which infects 1.2 million people in the United States every year [1], and opportunistic pathogens like Candida,...

2019-09-20 | MTBLS753 | MetaboLights
MetabolomicsNPC1 regulates the distribution of phosphatidylinositol 4 kinases at Golgi and Lysosome membranes
Cholesterol and phosphoinositides (PI) are two critically important lipids that are found in cellular membranes and dysregulated in many disorders. Therefore, uncovering molecular pathways connecting these essential lipids may offer new therapeutic insights. We report that loss of function of lysoso...
2021-09-15 | MTBLS2612 | MetaboLights
ProteomicsComparative profiling of the synaptic proteome from Alzheimer’s disease patients with focus on the APOE genotype
Degeneration of synapses in Alzheimer’s disease (AD) strongly correlates with cognitive decline, and synaptic pathology contributes to disease pathophysiology. We recently discovered that the strongest genetic risk factor for sporadic AD, apolipoprotein E epsilon 4 (APOE4), exacerbates synapse loss ...
ORGANISM(S): Homo sapiens (Human) 
2020-05-26 | PXD013753 | Pride
Alzheimer synapse apoe synaptoneurosome neurodegeneration 
UnknownJUUL e-liquid exposure elicits cytoplasmic Ca2+ responses and leads to cytotoxicity in cultured airway epithelial cells.
Not available
S-EPMC7772262 | biostudies-literature
UnknownRates and Predictors of Rapid Eye Movement Sleep Behavior Disorder Symptoms Among Post-9/11 Veterans.
Not available
S-EPMC11479852 | biostudies-literature
MetabolomicsSubcellular antibiotic visualization reveals a dynamic drug reservoir in infected macrophages
Tuberculosis, caused by the intracellular pathogen Mycobacterium tuberculosis, remains the world's deadliest infectious disease. Sterilizing chemotherapy requires at least 6 months of multidrug therapy. Difficulty visualizing the subcellular localization of antibiotics in infected host cells means t...
2020-12-07 | MTBLS959 | MetaboLights
ProteomicsA meta-analysis of rice phosphoproteomics data to understand variation in cell signalling across the rice pan-genome
Abstract We have re-analysed publicly available mass spectrometry (MS) data sets enriched for phosphopeptides from Asian rice (Oryza sativa). In total we have identified, 15522 phosphosites on Serine, Threonine and Tyrosine residues on rice proteins. The data has been loaded into UniProtKB, enabling...
ORGANISM(S): Oryza sativa (Rice) 
2023-11-08 | PXD046188 | Pride
Phosphoproteomics Ptmexchange Flr Public data Reanalysis 
TranscriptomicsHigh-resolution mapping of the spatial organization of Caulobacter crescentus chromosome by chromosome conformation capture in conjunction with next-generation sequencing (Hi-C)
Chromosomes must be highly compacted and organized within cells, but how this is achieved in vivo remains poorly understood. We report the first use of Hi-C to map the structure of bacterial chromosomes at a high, unprecedented resolution. Analysis of Hi-C data and polymer modeling indicates that th...
ORGANISM(S): Caulobacter crescentus CB15 
2013-10-30 | E-GEOD-45966 | biostudies-arrayexpress
UnknownGenetic structure of the nadA and nadB antivirulence loci in Shigella spp.
Not available
S-EPMC1951923 | biostudies-literature
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