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ProteomicsIn vivo proteome of Pseudomonas aeruginosa in airways of cystic fibrosis patients
Chronic airway infection with P. aeruginosa (PA) is a hallmark of cystic fibrosis (CF) disease. The mechanisms producing PA persistence in CF therapies remain poorly understood. To gain insight on PA physiology in patient airways and better understand how in vivo bacterial functioning differs from...
ORGANISM(S): Homo sapiens (Human) Pseudomonas aeruginosa 
2019-05-09 | PXD011792 | Pride
Cystic fibrosis Bacterial population proteomes Pseudomonas aeruginosa Quantitative proteomics 
ProteomicsFast and accurate bacterial species identification in biological samples using LC-MS/MS mass spectrometry and machine learning (DDA dataset)
We have developed a new strategy for identifying bacterial species in biological samples using specific LC-MS/MS peptidic signatures. In the first training step, deep proteome coverage of bacteria of interest is obtained in Data Independent Acquisition (DIA) mode, followed by the use of machine lear...
ORGANISM(S): Citrobacter Freundii (ncbitaxon:546) Streptococcus Agalactiae 2603v/r (ncbitaxon:208435) Staphylococcus Aureus Subsp. Aureus Nctc 8325 (ncbitaxon:93061) Streptococcus Mitis (ncbitaxon:28037) Klebsiella Oxytoca (ncbitaxon:571) Staphylococcus Epidermidis Atcc 12228 (ncbitaxon:176280) Enterococcus Faecalis V583 (ncbitaxon:226185) Enterobacter Aerogenes Kctc 2190 (ncbitaxon:1028307) Proteus Mirabilis (ncbitaxon:584) Escherichia Coli K-12 (ncbitaxon:83333) Enterobacter Cloacae (ncbitaxon:550) Klebsiella Pneumoniae Subsp. Pneumoniae Mgh 78578 (ncbitaxon:272620) Pseudomonas Aeruginosa Pao1 (ncbitaxon:208964) Staphylococcus Saprophyticus Subsp. Saprophyticus Atcc 15305 (ncbitaxon:342451) Staphylococcus Haemolyticus Jcsc1435 (ncbitaxon:279808) 
2019-05-16 | MSV000083784 | MassIVE
TranscriptomicsTranscription profiling by high throughput sequencing of Schizosaccharomyces pombe transcriptome during both proliferation and quiescence
Data on absolute molecule numbers are rare but will empower the modeling, understanding and comparison of cellular functions and biological systems. We quantified transcriptomes and proteomes in fission yeast during both proliferation and quiescence. This rich resource provides the first comprehensi...
ORGANISM(S): Schizosaccharomyces pombe 
2012-10-26 | E-MTAB-1154 | biostudies-arrayexpress
ProteomicsFast and accurate bacterial species identification in biological samples using LC-MS/MS mass spectrometry and machine learning (DIA dataset)
We have developed a new strategy for identifying bacterial species in biological samples using specific LC-MS/MS peptidic signatures. In the first training step, deep proteome coverage of bacteria of interest is obtained in Data Independent Acquisition (DIA) mode, followed by the use of machine lear...
ORGANISM(S): Citrobacter Freundii (ncbitaxon:546) Streptococcus Agalactiae 2603v/r (ncbitaxon:208435) Staphylococcus Aureus Subsp. Aureus Nctc 8325 (ncbitaxon:93061) Streptococcus Mitis (ncbitaxon:28037) Klebsiella Oxytoca (ncbitaxon:571) Staphylococcus Epidermidis Atcc 12228 (ncbitaxon:176280) Enterococcus Faecalis V583 (ncbitaxon:226185) Enterobacter Aerogenes Kctc 2190 (ncbitaxon:1028307) Proteus Mirabilis (ncbitaxon:584) Escherichia Coli K-12 (ncbitaxon:83333) Enterobacter Cloacae (ncbitaxon:550) Klebsiella Pneumoniae Subsp. Pneumoniae Mgh 78578 (ncbitaxon:272620) Pseudomonas Aeruginosa Pao1 (ncbitaxon:208964) Staphylococcus Saprophyticus Subsp. Saprophyticus Atcc 15305 (ncbitaxon:342451) Staphylococcus Haemolyticus Jcsc1435 (ncbitaxon:279808) 
2019-05-16 | MSV000083793 | MassIVE
ProteomicsHigh resolution time-lapse proteomic analysis of sporulation
Bacillus subtilis vegetative cells switch to sporulation upon nutrient limitation. To investigate the proteome changeover during sporulation, a time-lapse proteomic analysis was performed in a cell population that was induced to sporulate synchronously. Here, we are the first to comprehensively inve...
ORGANISM(S): Bacillus Subtilis 
2021-04-03 | MSV000087154 | MassIVE
ProteomicsUpper airway proteomes of infants and children in sub-Saharan Africa
Mass spectrometry-based proteomics was carried out on Naso- and oropharyngeal swabs collected from infants and children presenting to hospital with both mild and severe respiratory illnesses as well as age-matched control children who were well and sampled from home.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2018-04-04 | MSV000082238 | MassIVE
ProteomicsOmykiss - Liver, iBAQ (Causeyetal,bmcgenomics2018)
abundance based on iBAQ, Interaction consistency score: 5.5, Coverage: 13
ORGANISM(S): 8022 
2018-00-00 | 4265139541 | PAXDB
ProteomicsSewage Protein Information Mining: Discovery of Large Biomolecules as Biomarkers of Population and Industrial Activities.
Wastewater-based epidemiology has been revealed as a powerful approach for the survey of the population's health and lifestyle. In this context, proteins have been proposed as potential biomarkers that complement the information provided by those used up to now (small exogenous molecules, metabolite...
ORGANISM(S): Bos taurus (Bovine) Homo sapiens (Human) Mus musculus (Mouse) Gallus gallus (Chicken) Sus scrofa domesticus (domestic pig) Rattus norvegicus (Rat) 
2023-07-25 | PXD038781 | Pride
Environmental proteomics  sewage epidemiology  water fingerprinting Mass spectrometry. 
UnknownTolRad, a model for predicting radiation tolerance using Pfam annotations, identifies novel radiosensitive bacterial species from reference genomes and MAGs.
Not available
S-EPMC11466087 | biostudies-literature
ProteomicsProteome Landscapes of the Human Colorectal Mucosa, and its Adenoma and Cancer
Adenomatous polyps in the colorectal tract are benign tumors with the potential to develop cancer. In this study we perform a large scale proteomic study of comparing the proteomes of colorectal enterocytes (N) and the cells of the adenoma (A) and cancer (C). Using formalin fixed and paraffin embedd...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-10 | MSV000080620 | MassIVE
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