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Journal of Proteome Research
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3.78
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7655
Papers 7694
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The proboscis extension response (PER) reflex may be used to condition the pairing of an odor with sucrose, which is applied to the antennae, in experiments to induce learning, where the odor represents a conditioned stimulus, while sucrose represents an unconditioned stimulus. A series of studies have been conducted with honeybees relating learning and memory acquisition / retrieval using the PER as a strategy for accessing their ability to exhibit an unconditioned stimulus; however, the major ...
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N-glycoproteins are involved in various biological processes. Certain distinctive glycoforms on specific glycoproteins enhance the specificity and/or sensitivity of cancer diagnosis. Therefore, the characterization of plasma N-glycoproteome is essential for new biomarker discovery. Absence of suitable analytical methods for in-depth and large-scale analyses of low-abundance plasma glycoproteins make it challenging to investigate the role of glycosylation. In this study, we developed an integrate...
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Knowledge about the structure and stability of PPIs is inevitable to decipher the behavior of protein systems. Prediction of protein complexes’ stability is an interesting topic in the field of structural biology. There are some promising published computational approaches that predict the affinity between subunits of protein dimers using 3D structure of both subunits. In current study, we classify protein complexes with experimentally measured affinity into distinct classes with different mean ...
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Thompson Seedless, a commonly grown table grape variety, is sensitive to salinity when grown on its own roots and therefore, it is frequently grafted onto salinity tolerant wild grapevine rootstocks. Rising soil salinity is a growing concern in irrigated agricultural systems. Accumulation of salts near the root zone severely hampers plant growth leading to a decrease in the productive lifespan of grapevine, causing heavy yield losses to the farmer. In the present study, we investigated the diffe...
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ADP-ribosylation refers to the post-translational modification of protein substrates with monomers or polymers of the small molecule ADP-ribose. ADP-ribosylation is enzymatically regulated and plays roles in cellular processes including DNA repair, nucleic acid metabolism, cell death, cellular stress responses and antiviral immunity. Recent advances in the field of ADP-ribosylation have led to the development of proteomics approaches to enrich and identify endogenous ADP-ribosylated peptides by ...
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Intrahepatic cholestasis (IC) is a common syndrome that affects the liver, with treatment options being limited. Huangqi decoction (HQD), a classic herbal medicine, has shown protective effects against IC. In this study, iTRAQ-based quantitative proteomics was performed to investigate the potential mechanism of action of HQD on alpha-naphthylisothiocyanate (ANIT)-induced IC, resulting in 2,796 quantified proteins across all the samples, including 270 differentially expressed proteins under HQD t...
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The efficient analysis of secretomes is important to study the mechanisms of bacterial secretion. However, secretome analysis of bacteria that rely on rich media for optimal secretion via modern quantitative shotgun proteomics workflows is often hampered by the higher degree of sample impurities. This may be a reason for the low number of quantitative secretome investigations in such cases. We assessed the efficiency and amenability for rich media secretome analysis of different workflows includ...
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Papillary thyroid carcinoma (PTC) is the most common type of thyroid cancer among women worldwide. It is confirmed mainly by fine-needle aspiration biopsy (FNAB), an invasive diagnostic method. The key proteins responsible for thyroid hormone biosynthesis are glycosylated. Hence, changes in site-specific glycosylation are associated with thyroid cancer. Integrated quantitative proteomic and glycoproteomic analyses of body fluids from patients with PTC may identify potential noninvasive biomarker...
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The field of structural biology is increasingly focusing on studying proteins in situ, i.e. in their greater biological context. Crosslinking mass spectrometry is contributing to this effort, typically through the use of MS-cleavable crosslinkers. Here, we apply the popular non-cleavable crosslinker disuccinimidyl suberate to human mitochondria and identify 5,518 distance restraints between protein residues. Each distance restraint on proteins or their interactions provides structural informatio...
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Phosphorylation is a post-translational modification with a vital role in cellular signaling. Isobaric labeling-based strategies, such as tandem mass tags (TMT), can measure the relative phosphorylation states of peptides in a multiplexed format. However, the low stoichiometry of protein phosphorylation constrains the depth of phosphopeptide analysis by mass spectrometry. As such, robust and sensitive workflows are required. Here we evaluate and optimize high-Field Asymmetric waveform Ion Mobili...
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