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MetabolomicsLipidOA: A Machine-Learning and Prior-Knowledge-Based Tool for Structural Annotation of Glycerophospholipids
The Paternò-Büchi (PB) reaction is a carbon-carbon double bond (C═C)-specific derivatization reaction that can be used to pinpoint the location(s) of C═C(s) in unsaturated lipids and quantitate the location of isomers when coupled with tandem mass spectrometry (MS/MS). As the data of PB-MS/MS are in...
2022-11-23 | MTBLS6075 | MetaboLights
TranscriptomicsDEPS-1 promotes P granule assembly and RNA interference in C. elegans germ cells
P granules are germ-cell-specific cytoplasmic structures containing RNA and protein and required for proper germ cell development in C. elegans. A new P-granule-associated protein, DEPS-1, whose loss disrupts P granule structure and function was analysed in this study. Genome wide analysis of gene...
ORGANISM(S): Caenorhabditis elegans 
2010-05-26 | E-GEOD-9993 | biostudies-arrayexpress
ProteomicsStructural analysis of the PTEN:P-Rex2 signaling node reveals how cancer-associated mutations coordinate to hyperactivate Rac1
The PTEN:P-Rex2 complex is a commonly mutated signaling nodes in metastatic cancer. The dual-specificity phosphatase PTEN canonically functions as a tumour suppressor by hydrolysing PI(3,4,5)P3 to PI(4,5)P2 to inhibit PI3K-AKT signaling. P-Rex2 is a RhoGTPase guanine nucleotide exchange factor activ...
ORGANISM(S): Homo sapiens (Human) 
2022-08-12 | PXD021126 | Pride
Cancer P-rex2 Pten Crosslinking mass spectrometry Metastasis 
ProteomicsStructure of the metastatic factor P-Rex1 reveals a two-layered autoinhibitory mechanism
Rho GTPases regulate actin dynamics and cell motility, and their hyperactivation drives cancer metastasis1. P-Rex (PI(3,4,5)P3-dependent Rac Exchanger) guanine nucleotide exchange factors (GEFs) are potent on-switches for Rho GTPase signalling and are frequently dysregulated in metastatic cancer2. P...
ORGANISM(S): Homo sapiens (Human) 
2022-08-12 | PXD034327 | Pride
Cancer Rac1 Cryo-em P-rex1 Metastasis 
ProteomicsBile Salts Enhance the Susceptibility of the Allergenic Lipid Transfer Protein from Peach, Pru p 3 to in vitro gastrointestinal digestion
Sensitisation to the lipid transfer protein Pru p 3 is associated with severe allergic reactions to peach, the proteins stability being thought to play a role in its allergenicity. Lipid binding increases susceptibility of Pru p 3 to digestion and so the impact of bile salts on the in vitro gastroin...
ORGANISM(S): Prunus persica 
2023-10-24 | PXD037801 | Pride
Disulphide bonds Immunoactivity Digestibility Bile salts Pru p 3 
TranscriptomicsA compendium of antibiotic-induced transcription profiles reveals broad regulation of P. multocida virulence genes
Treatment of bacteria with antibiotics at or close to the inhibitory concentration leads to specific transcriptional responses often affecting target genes and targets pathways. A dataset of transcriptional profiles (compendium) induced by antibiotics with known mode-of-action (MoA) can be used to g...
ORGANISM(S): Pasteurella multocida 
2008-06-01 | E-GEOD-10051 | biostudies-arrayexpress
TranscriptomicsThree-dimensional modeling of the P. falciparum genome during the erythrocytic cycle reveals a strong connection between genome architecture and gene expression
The development of the human malaria parasite Plasmodium falciparum is controlled by coordinated changes in gene expression throughout its complex life cycle, but the corresponding regulatory mechanisms are incompletely understood. To study the relation between genome architecture and gene regulatio...
ORGANISM(S): Plasmodium falciparum 3D7 
2014-01-06 | E-GEOD-50199 | biostudies-arrayexpress
ProteomicsRole of prorenin receptor (P)RR in endometrial cancer cell growth
Endometrial cancer is the most commonly diagnosed gynecologic malignancy in women after breast, lung and colorectal cancer. Despite numerous scientific advances, the incidence and mortality rate of endometrial cancer is on the rise. Considerable research effort has therefore been placed on understan...
ORGANISM(S): Homo sapiens (Human) 
2022-04-23 | PXD023042 | Pride
Quantitative proteomics Endometrial epithelial cancer cell Cellular proliferation Tandem mass tags An3ca and hec-1a Atp6ap2 (p)rr Ishikawa Cellular viability 
ProteomicsNovel proteomic approach (PUNCH-P) reveals cell cycle-specific fluctuations in mRNA translation
Monitoring protein synthesis is essential to our understanding of gene expression regulation, as protein abundance is thought to be predominantly controlled at the level of translation. Mass-spectrometric and RNA sequencing methods have been recently developed for investigating mRNA translation at a...
ORGANISM(S): Homo sapiens (Human) 
2019-02-18 | PXD012727 | Pride
Translatome Ribosome Punch-p 
TranscriptomicsThe prior probability can derive the variety in the interpretation of p-value
In contrast to its common definition and calculating process, interpretations of p-value differ among statisticians. Since p-value is the basis of various methodologies, this divergence has led to distinct test methodologies as well as various opinions for evaluating test results, producing a chaoti...
ORGANISM(S): Mus musculus 
2011-01-12 | GSE26498 | GEO
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