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Reza Pourhaghighi et al.
Cell systems, 10(4), 333-350 (2020-04-24)
Connectivity webs mediate the unique biology of the mammalian brain. Yet, while cell circuit maps are increasingly available, knowledge of their underlying molecular networks remains limited. Here, we applied multi-dimensional biochemical fractionation with mass spectrometry and machine learning to survey
Elise Iracane et al.
mSphere, 3(6) (2018-11-09)
The unfolded protein response (UPR) in the endoplasmic reticulum (ER) is well conserved in eukaryotes from metazoa to yeast. The transcription factor HAC1 is a major regulator of the UPR in many eukaryotes. Deleting HAC1 in the yeast Candida parapsilosis
Xian-Liang Yan et al.
Neuroscience letters, 597, 90-96 (2015-05-02)
Previous studies have demonstrated that activation of proline-rich tyrosine kinase 2 (PYK2) in cerebral ischemia is involved in the modulation of N-methyl-d-aspartate-type (NMDA) glutamate receptor activity and Ca(2+) dynamics, resulting in ischemic neuron death ultimately. A number of reports indicate
Jason Z Zhang et al.
Cell, 182(6), 1531-1544 (2020-08-28)
The fidelity of intracellular signaling hinges on the organization of dynamic activity architectures. Spatial compartmentation was first proposed over 30 years ago to explain how diverse G protein-coupled receptors achieve specificity despite converging on a ubiquitous messenger, cyclic adenosine monophosphate
Mariana Molina et al.
Journal of neural transmission (Vienna, Austria : 1996), 122(7), 993-1005 (2015-07-01)
Brain function in normal aging and neurological diseases has long been a subject of interest. With current technology, it is possible to go beyond descriptive analyses to characterize brain cell populations at the molecular level. However, the brain comprises over
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
Gerrald A Lodewijk et al.
Molecular biology and evolution, 37(9), 2531-2548 (2020-04-25)
Ever since the availability of genomes from Neanderthals, Denisovans, and ancient humans, the field of evolutionary genomics has been searching for protein-coding variants that may hold clues to how our species evolved over the last ∼600,000 years. In this study
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
Esmé Ti van der Gracht et al.
Journal for immunotherapy of cancer, 8(2) (2020-12-10)
Adenoviral vectors emerged as important platforms for cancer immunotherapy. Vaccination with adenoviral vectors is promising in this respect, however, their specific mechanisms of action are not fully understood. Here, we assessed the development and maintenance of vaccine-induced tumor-specific CD8+ T
Jonathan M Berman et al.
American journal of physiology. Cell physiology, 304(7), C604-C613 (2013-01-25)
Electrophysiological techniques make use of Ag/AgCl electrodes that are in direct contact with cells or bath. In the bath, electrodes are exposed to numerous experimental conditions and chemical reagents that can modify electrode voltage. We examined voltage offsets created in
Bruna P Selbach et al.
Biochemistry, 52(23), 4089-4096 (2013-05-16)
The first step in sulfur mobilization for the biosynthesis of Fe-S clusters under oxidative stress and iron starvation in Escherichia coli involves a cysteine desulfurase SufS. Its catalytic reactivity is dependent on the presence of a sulfur acceptor protein, SufE
Sisir Kumar Barik et al.
Biochemical pharmacology, 178, 114109-114109 (2020-06-23)
Protein-tyrosine phosphatase 1B (PTP1B, EC is an important regulator of insulin signalling. Herein, we employed experimental and computational biology techniques to investigate the inhibitory properties of phenolics, identified from four in vitro gastrointestinal digested (IVGD) soft fruits, on PTP1B.
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
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
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
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.
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
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
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
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
Cheng Liu et al.
Journal of agricultural and food chemistry, 62(48), 11672-11680 (2014-11-15)
Gallic acid (GA) has long been associated with a wide range of biological activities. In this study, its antitumor effect against B16F10 melanoma cells was demonstrated by MTT assay, cell migration assay, wound-healing assay, and flow cytometric analysis. GA 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.
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
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
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
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
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
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