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Ru Li et al.
Journal of proteome research, 14(5), 2026-2035 (2015-03-15)
Oxidative stress due to the imbalance of reactive oxygen species (ROS) and the resulting reversible cysteine oxidation (CysOX) are involved in the early proatherogenic aspect of atherosclerosis. Given that the corresponding redox signaling pathways are still unclear, a modified biotin
Didier Surdez et al.
Cancer cell, 39(6), 810-826 (2021-05-01)
STAG2, a cohesin family gene, is among the most recurrently mutated genes in cancer. STAG2 loss of function (LOF) is associated with aggressive behavior in Ewing sarcoma, a childhood cancer driven by aberrant transcription induced by the EWSR1-FLI1 fusion oncogene.
Yanqin Liu et al.
Biochemical and biophysical research communications, 454(2), 295-300 (2014-12-03)
Protein misfolding causes serious biological malfunction, resulting in diseases including Alzheimer's disease, Parkinson's disease and cataract. Molecules which inhibit protein misfolding are a promising avenue to explore as therapeutics for the treatment of these diseases. In the present study, thioflavin
Marc van Vijven et al.
Journal of experimental orthopaedics, 7(1), 48-48 (2020-07-06)
Upon anterior cruciate ligament (ACL) rupture, reconstruction is often required, with the hamstring tendon autograft as most widely used treatment. Post-operative autograft remodeling enhances graft rupture risk, which occurs in up to 10% of the patient population, increasing up to
Paria Pooyan et al.
GigaScience, 9(11) (2020-11-01)
Generation of oligodendrocytes is a sophisticated multistep process, the mechanistic underpinnings of which are not fully understood and demand further investigation. To systematically profile proteome dynamics during human embryonic stem cell differentiation into oligodendrocytes, we applied in-depth quantitative proteomics at
Jaswinder Singh Maras et al.
iScience, 24(8), 102823-102823 (2021-07-27)
Rapid diagnosis of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection still remains a major challenge. A multi-omic approach was adopted to analyze the respiratory specimens of 20 SARS-CoV-2-positive, 20 negative and 15 H1N1 pdm 2009 positive cases. Increased basal
Xuanfeng Yue et al.
Journal of the American Society for Mass Spectrometry, 25(8), 1322-1331 (2014-05-20)
The mechanisms whereby protein ions are liberated from charged droplets during electrospray ionization (ESI) remain under investigation. Compact conformers electrosprayed from aqueous solution in positive ion mode likely follow the charged residue model (CRM), which envisions analyte release after solvent
Jaimeen D Majmudar et al.
MedChemComm, 10(2), 209-220 (2019-03-19)
The mitochondrial acyl carrier protein (human ACPM, yeast Acp1) is an essential mitochondrial protein. Through binding of nascent acyl chains on the serine (S112)-bound 4'-phosphopantetheine (4'-PP) cofactor, ACPM is involved in mitochondrial fatty acid synthesis and lipoic acid biogenesis. Recently
Jodi N Young et al.
Bio-protocol, 7(6), e2191-e2191 (2017-03-20)
This protocol describes a method to extract ribulose-1,5-bisphosphate carboxylase oxygenase (Rubisco) from diatoms (Bacillariophyta) to determine catalytic performance. This protocol has been adapted from use in cyanobacteria and higher plants (Andrews, 1988; Whitney and Sharwood, 2007). First part (steps A1-A3)
Moshe Ben-David et al.
Journal of molecular biology, 427(6 Pt B), 1359-1374 (2015-02-04)
Despite the abundance of membrane-associated enzymes, the mechanism by which membrane binding stabilizes these enzymes and stimulates their catalysis remains largely unknown. Serum paraoxonase-1 (PON1) is a lipophilic lactonase whose stability and enzymatic activity are dramatically stimulated when associated with
Darran J Wigelsworth et al.
PloS one, 7(12), e51356-e51356 (2012-12-14)
Various pathogenic clostridia produce binary protein toxins associated with enteric diseases of humans and animals. Separate binding/translocation (B) components bind to a protein receptor on the cell surface, assemble with enzymatic (A) component(s), and mediate endocytosis of the toxin complex.
A Kr zel et al.
Journal of inorganic biochemistry, 84(1-2), 77-88 (2001-05-02)
D,L-Dithiothreitol (DTT), known also as Cleland reagent, is a thiol group protectant, used commonly in peptide and protein chemistry. Therefore, it is often added at high concentrations in preparations of proteins relevant to heavy metal biochemistry. The coordination of five
Hailong Liu et al.
Talanta, 143, 431-437 (2015-06-17)
Specific enrichment of trace phosphoproteins or phosphopeptides from complex biological samples prior to mass spectrometry analysis is of profound significance for in-depth phosphoproteomics. In this work, an amine-functionalized TiO2 nano-material with N'[3-(trimethoxysilyl)-propyl] diethylenetriamine (TPDA) modified on the surface of nanoparticle
Ahmed Sadik et al.
Cell, 182(5), 1252-1270 (2020-08-21)
Aryl hydrocarbon receptor (AHR) activation by tryptophan (Trp) catabolites enhances tumor malignancy and suppresses anti-tumor immunity. The context specificity of AHR target genes has so far impeded systematic investigation of AHR activity and its upstream enzymes across human cancers. A
Heidi M Blank et al.
Molecular biology of the cell, 31(10), 1069-1084 (2020-03-05)
Establishing the pattern of abundance of molecules of interest during cell division has been a long-standing goal of cell cycle studies. Here, for the first time in any system, we present experiment-matched datasets of the levels of RNAs, proteins, metabolites
Xiangpeng Guo et al.
Nature protocols, 16(11), 5193-5219 (2021-10-27)
Application of synthetic nucleoside analogues to capture newly transcribed RNAs has unveiled key features of RNA metabolism. Whether this approach could be adapted to isolate the RNA-bound proteome (RNA interactome) was, however, unexplored. We have developed a new method (capture
Jia Wu et al.
Scientific reports, 5, 12230-12230 (2015-07-17)
Pancreatic cancer is one of the more common cancers with a poor prognosis. Some varieties of cancer are related to virus infection. As a virus-induced protein, APOBEC3G (A3G) presents extensive anti-virus ability, but the role of A3G in pancreatic cancer
Jingkai Zhou et al.
MethodsX, 8, 101517-101517 (2021-11-11)
Production of a protein of interest in bacteria and its purification from bacterial lysates are valuable tools for the purification of larger amounts of recombinant proteins. The low cost of culturing, and the rapid cell growth of bacteria make this
Sebastian Baumann et al.
Science advances, 6(11), eaaz1588-eaaz1588 (2020-03-24)
Through the asymmetric distribution of messenger RNAs (mRNAs), cells spatially regulate gene expression to create cytoplasmic domains with specialized functions. In neurons, mRNA localization is required for essential processes such as cell polarization, migration, and synaptic plasticity underlying long-term memory
Hui-Ju Yang et al.
The Journal of neuroscience : the official journal of the Society for Neuroscience, 41(13), 2828-2841 (2021-02-27)
Common fusion machinery mediates the Ca2+-dependent exocytosis of synaptic vesicles (SVs) and dense-core vesicles (DCVs). Previously, Synapsin Ia (Syn Ia) was found to localize to SVs, essential for mobilizing SVs to the plasma membrane through phosphorylation. However, whether (or how)
Lok Hang Mak et al.
Methods (San Diego, Calif.), 77-78, 63-68 (2015-03-10)
PTEN (phosphatase and tensin homologue deleted on chromosome 10) is well known as a tumour suppressor. It's PI(3,4,5)P3 lipid phosphatase activity is an important counteracting mechanism in PI 3-kinase (phosphoinositide 3-kinase) signalling. Furthermore, PTEN lies upstream of Akt kinase, a
Cristian A Pocognoni et al.
Biology of reproduction, 93(5), 124-124 (2015-10-23)
The sperm acrosome reaction is a unique, regulated exocytosis characterized by the secretion of the acrosomal content and the release of hybrid vesicles formed by patches of the outer acrosomal and plasma membranes. In previous reports, we have shown that
Luís Sousa et al.
International journal of molecular sciences, 21(18) (2020-09-18)
Cystic fibrosis (CF) cells display a more cancer-like phenotype vs. non-CF cells. KLF4 overexpression has been described in CF and this transcriptional factor acts as a negative regulator of wt-CFTR. KLF4 is described as exerting its effects in a cell-context-dependent
Ravi Holani et al.
Gut microbes, 12(1), 1785802-1785802 (2020-07-14)
We hypothesized that the antimicrobial peptide cathelicidin has a physiological role in regulating gut inflammatory homeostasis. We determined that cathelicidin synergizes with LPS to facilitate its internalization and signaling via endosomic TLR4 in colonic epithelium, evoking synthesis of the human
George Dialynas et al.
PLoS genetics, 11(5), e1005231-e1005231 (2015-05-23)
Mutations in the human LMNA gene cause muscular dystrophy by mechanisms that are incompletely understood. The LMNA gene encodes A-type lamins, intermediate filaments that form a network underlying the inner nuclear membrane, providing structural support for the nucleus and organizing
Beate I Escher et al.
Environmental health perspectives, 128(7), 77007-77007 (2020-07-24)
High-throughput screening of chemicals with in vitro reporter gene assays in Tox21 has produced a large database on cytotoxicity and specific modes of action. However, the validity of some of the reported activities is questionable due to the "cytotoxicity burst,"
Qi Xu et al.
Biophysical journal, 95(6), 2849-2858 (2008-07-01)
Nitroxide spin labels were incorporated into selected sites within the beta-barrel of the bacterial outer-membrane transport protein BtuB by site-directed mutagenesis, followed by chemical modification with a methanethiosufonate spin label. The electron paramagnetic resonance lineshapes of the spin-labeled side chain
S Xu et al.
Oncogene, 34(12), 1520-1531 (2014-04-15)
Colorectal tumor-initiating cells (CT-ICs) have self-renewal capabilities and have an important role in tumorigenesis, metastasis, recurrence and treatment resistance in colorectal cancer. Multiple cell-surface molecules targeting CT-ICs, possibly representing different CT-IC subpopulations, have been reported. However, whether new surface markers
Vitaliy B Borisov et al.
FEBS letters, 587(14), 2214-2218 (2013-06-04)
Cytochrome bd oxygen reductase from Escherichia coli has three hemes, b558, b595 and d. We found that the enzyme, as-prepared or in turnover with O2, rapidly decomposes H2O2 with formation of approximately half a mole of O2 per mole of
Mélissa Dussoyer et al.
Journal of proteomics, 251, 104397-104397 (2021-10-23)
A striking feature of skin organization is that the extracellular matrix (ECM) occupies a larger volume than the cells. Skin ECM also directly contributes to aging and most cutaneous diseases. In recent years, specific ECM enrichment protocols combined with in
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