“Proteomics” Science-Research, March 2022, Week 2 — summary from DOE Pages, Springer Nature, DOAJ, NCBI Gene, PubMed, Europe PMC and Wiley Online Library

DOE Pages — summary generated by Brevi Assistant

Urine proteins can function as feasible biomarkers for detecting and keeping track of different conditions. A thorough urine proteome data source, produced from a variety of urine examples with different condition problems, can act as a recommendation source for helping with exploration of potential urine protein biomarkers. History: Global and phosphoproteome profiling has demonstrated fantastic utility for the analysis of scientific samplings. Statistical evaluation of the differences in ways among the five loading teams showed that the 20 µg loading team was considerably different from the 400 µg loading team. In systems biology research studies, the integration of numerous omics dimensions has been revealed to give a more full and interesting view of organic paths. Thus, the prospect of drawing out various types of particles and executing several omics measurements on solitary samples is very attractive, yet such studies are challenging because of the reality that the removal problems vary according to the molecule type. Pelagibacter ubique is a crucial driver of aquatic biogeochemistry cycles and a model for comprehending how minimal genomes evolved in free-living anucleate organisms. This research study checks out the uncommon sulfur acquisition approach that has advanced in these cells, which lack assimilatory sulfate decrease and rather depend on reduced sulfur compounds found in oxic marine environments to meet their cellular allocations. A microorganism tree of life is a theoretical and symbolic tree to capture a simplified narrative of the transformative course and kinship amongst extant organisms. Since the whole-genome sequence of an organism is, currently, the most comprehensive descriptor of the organism, a whole-genome sequence-based ToL can be an empirically derivable surrogate for the organism ToL.

Please keep in mind that the text is machine-generated by the Brevi Technologies’ Natural language Generation model, and we do not bear any responsibility. The text above has not been edited and/or modified in any way.

Source texts:

• https://www.osti.gov/pages/biblio/1808283 — A Comprehensive Urine Proteome Database Generated From Patients With Various Renal Conditions and Prostate Cancer.
• https://www.osti.gov/pages/biblio/1853809 — Evaluation of differential peptide loading on tandem mass tag-based proteomic and phosphoproteomic data quality.
• https://www.osti.gov/pages/biblio/1618370 — MPLEx: a Robust and Universal Protocol for Single-Sample Integrative Proteomic, Metabolomic, and Lipidomic Analyses.
• https://www.osti.gov/pages/biblio/1618364 — Proteome Remodeling in Response to Sulfur Limitation in “ Candidatus Pelagibacter ubique”.
• https://www.osti.gov/pages/biblio/1625057 — Whole-proteome tree of life suggests a deep burst of organism diversity.

Springer Nature — summary generated by Brevi Assistant

The SH-SY5Y human neuroblastoma cells have been used for years as a cell-based model of dopaminergic nerve cells to explore the underlying scientific research of cellular and molecular mechanisms of neurodegeneration in Parkinson’s condition. Information exposing the healthy protein expression adjustments in 6-OHDA generated cytotoxicity in distinguished SH-SY5Y cells continue to be void. The enrichment of the KEGG ribosome pathway was discovered with significant downregulation of all the 21 ribosomal healthy proteins in differ-SH-SY5Y neural cells compared with uniform cells. Background Maize is one of the most essential food plants worldwide. Improving maize origin attributes to efficient water uptake will aid to enhance irrigation and add to sustainable maize production. Collection evaluation of DAPs revealed MR and UR had similar protein wealth patterns different from LR. Background Salt stress is commonly related to too much manufacturing of responsive oxygen types. Using iTRAQ press reporters, we figured out that salt stress caused substantial changes in the abundance of many healthy proteins. Verdicts Based on the redox proteomics results, we constructed a map of the regulatory network of M14 root redox healthy proteins in response to salt stress. The family Anisakidae, primarily represented by Anisakis simplex s. L. And Pseudoterranova decipiens, encompasses zoonotic nematodes contaminating many aquatic fish. The results confirmed that at least five A. Simplex irritants have homologous proteins in P. Decipiens; an outcome that stresses the significance of also including E/S protein essences in proteomic studies. Not just A. Simplex, but P. Decipiens should, as a result, be taken into consideration as a potential source of irritants that can bring about hypersensitivity responses in people.

Please keep in mind that the text is machine-generated by the Brevi Technologies’ Natural language Generation model, and we do not bear any responsibility. The text above has not been edited and/or modified in any way.

Source texts:

• https://doi.org/10.1007/s12031-021-01962-z — 6-Hydroxydopamine Induces Neurodegeneration in Terminally Differentiated SH-SY5Y Neuroblastoma Cells via Enrichment of the Nucleosomal Degradation Pathway: a Global Proteomics Approach.
• https://doi.org/10.1186/s12864-022-08394-y — Label-free quantitative proteomics of maize roots from different root zones provides insight into proteins associated with enhance water uptake.
• https://doi.org/10.1186/s40529-022-00337-w — Quantitative redox proteomics revealed molecular mechanisms of salt tolerance in the roots of sugar beet monomeric addition line M14.
• https://doi.org/10.1038/s41598-022-08113-3 — Targeted proteomics and specific immunoassays reveal the presence of shared allergens between the zoonotic nematodes Anisakis simplex and Pseudoterranova decipiens.

DOAJ — summary generated by Brevi Assistant

Cryptotanshinone is a lipophilic constituent of Salvia miltiorrhiza, with a broad-spectrum anticancer task. We have observed that CTS boosts the efficiency of gefitinib in human lung cancer H1975 cells, yet little is learnt about its molecular mechanism. Posttraumatic stress disorder is a serious stress condition that happens in individuals that have experienced major terrible occasions. The combination of urine proteomics and metabolomics explores a new technique for the research of the underlying pathological mechanisms of PTSD. The specific mechanisms by which nitrogen impacts nodulation and nitrogen addiction in leguminous crops are still vague. The experiment was developed to research the results of exogenous nitrogen on healthy proteins and metabolites in origin blemishes and give a theoretical recommendation for evaluating the physiological mechanisms of the interaction between nitrogen application and nitrogen fixation in soybean origin blemishes. Arsenic is just one of the most important harmful elements in the natural surroundings. Currently, although the evaluation of the prospective health and wellness threats of chronic arsenic poisoning has received wonderful attention, the research on the effects of arsenic on the brain is still limited. The distinction of keratocytes to myofibroblasts and fibroblasts is an essential requisite during corneal injury closure. Human corneal fibroblasts were cultured and set apart right into keratocytes in serum-free media and myofibroblasts with therapy with TGF-β. ObjectivesTo contrast the proteomics of synovial liquid -derived exosomes in rheumatoid arthritis, axial spondyloarthritis, gout pain, and osteo arthritis patients. The Enzyme-linked immunosorbent assay outcome showed that the exosome-derived PZP degree of SF in RA was greater than that in OA.

Please keep in mind that the text is machine-generated by the Brevi Technologies’ Natural language Generation model, and we do not bear any responsibility. The text above has not been edited and/or modified in any way.

Source texts:

• https://doi.org/10.3389/fphar.2022.837055 — Comparative Proteomics Analysis Reveals the Reversal Effect of Cryptotanshinone on Gefitinib-Resistant Cells in Epidermal Growth Factor Receptor-Mutant Lung Cancer.
• https://doi.org/10.3389/fnins.2022.828382 — Integrated Metabolomics and Proteomics Analysis of Urine in a Mouse Model of Posttraumatic Stress Disorder.
• https://doi.org/10.3390/ijms23052545 — Integrated Proteomics and Metabolomics Analysis of Nitrogen System Regulation on Soybean Plant Nodulation and Nitrogen Fixation.
• https://doi.org/10.3390/molecules27051495 — Investigating the Neurotoxic Impacts of Arsenic and the Neuroprotective Effects of Dictyophora Polysaccharide Using SWATH-MS-Based Proteomics.
• https://doi.org/10.3390/ijms23052572 — Quantitative Proteomics Reveals Molecular Network Driving Stromal Cell Differentiation: Implications for Corneal Wound Healing.
• https://doi.org/10.3389/fimmu.2022.800902 — TMT-Based Quantitative Proteomics Analysis of Synovial Fluid-Derived Exosomes in Inflammatory Arthritis.

NCBI Gene — summary generated by Brevi Assistant

The membrane-associated protein encoded by this gene belongs to the superfamily of ATP-binding cassette carriers. Different splicing and making use of alternative promoters results in numerous transcript versions. This gene inscribes a subunit of mitochondrial ATP synthase. Mitochondrial ATP synthase catalyzes ATP synthesis, using an electrochemical gradient of protons across the inner membrane layer during oxidative phosphorylation. The protein encoded by this gene belongs to a complicated of proteins that comprise adherens junctions. Once the epithelial sheet is full, the encoded protein also anchors the actin cytoskeleton and may be responsible for sending the call inhibition signal that causes cells to stop separating. This gene encodes a participant of the DEAD box family of RNA helicases that are included in a variety of cellular procedures as a result of its role as an adaptor particle, promoting interactions with a lot of various other variables. Dysregulation of this gene might contribute to cancer growth. This protein is a cytosolic enzyme encoded by a housekeeping X-linked gene whose major function is to produce NADPH, a crucial electron donor in the protection versus oxidizing agents and in reductive biosynthetic reactions. G6PD deficiency may cause neonatal jaundice, severe hemolysis, or serious chronic non-spherocytic hemolytic anemia.

Please keep in mind that the text is machine-generated by the Brevi Technologies’ Natural language Generation model, and we do not bear any responsibility. The text above has not been edited and/or modified in any way.

Source texts:

• https://www.ncbi.nlm.nih.gov/gene/5243 — ABCB1.
• https://www.ncbi.nlm.nih.gov/gene/498 — ATP5F1A.
• https://www.ncbi.nlm.nih.gov/gene/1499 — CTNNB1.
• https://www.ncbi.nlm.nih.gov/gene/1655 — DDX5.
• https://www.ncbi.nlm.nih.gov/gene/2539 — G6PD.

PubMed — summary generated by Brevi Assistant

SignificanceDeep profiling of the plasma proteome at range has been an obstacle for conventional approaches. Our results suggest that nanoparticle functionalization can be tailored to protein sets. Although research on the metabolism pertaining to stomach cancer cells is progressively obtaining enhancing interest, there is little research regarding metabolism-related genetics in GC. We think that this study offers thorough info to better comprehend the mechanism underlying the progression of GC metastasis and explores the potential therapeutic and prognostic metabolism-related targets for GC. The specific mechanisms through which nitrogen influences nodulation and nitrogen addiction in leguminous plants are still unclear. The experiment was made to examine the effects of exogenous nitrogen on healthy proteins and metabolites in origin nodules and supply a theoretical reference for analyzing the physical mechanisms of the communication between nitrogen application and nitrogen addiction in soybean origin nodules. Arsenic is among one of the most crucial harmful elements in the all-natural environment. Currently, although the evaluation of the possible wellness risks of chronic arsenic poisoning has gotten excellent attention, the research on the results of arsenic on the brain is still limited. Uveitis, a team of intraocular inflammatory conditions, is one of the significant causes of severe visual disability among the working-age population. Our findings exposed that the urinary system proteome could sensitively show vibrant pathophysiological modifications in EAU, and represent the very first step towards the application of urinary system protein biomarkers for uveitis. The distinction of keratocytes to myofibroblasts and fibroblasts is an essential requisite during corneal wound closure. Corneal stromal cell distinction is associated with the activation of diverse molecular pathways crucial for the repair of myofibroblasts and fibroblasts.

Please keep in mind that the text is machine-generated by the Brevi Technologies’ Natural language Generation model, and we do not bear any responsibility. The text above has not been edited and/or modified in any way.

Source texts:

• https://doi.org/10.1073/pnas.2106053119 — Engineered nanoparticles enable deep proteomics studies at scale by leveraging tunable nano-bio interactions.
• https://doi.org/10.3389/fcell.2022.816249 — Identification of 14 Differentially-Expressed Metabolism-Related Genes as Potential Targets of Gastric Cancer by Integrated Proteomics and Transcriptomics.
• https://doi.org/10.3390/ijms23052545 — Integrated Proteomics and Metabolomics Analysis of Nitrogen System Regulation on Soybean Plant Nodulation and Nitrogen Fixation.
• https://doi.org/10.3390/molecules27051495 — Investigating the Neurotoxic Impacts of Arsenic and the Neuroprotective Effects of Dictyophora Polysaccharide Using SWATH-MS-Based Proteomics.
• https://doi.org/10.3389/fmolb.2022.831632 — Proteome Analysis of Urinary Biomarkers in a Bovine IRBP-Induced Uveitis Rat Model via Data-Independent Acquisition and Parallel Reaction Monitoring Proteomics.
• https://doi.org/10.3390/ijms23052572 — Quantitative Proteomics Reveals Molecular Network Driving Stromal Cell Differentiation: Implications for Corneal Wound Healing.

Europe PMC — summary generated by Brevi Assistant

The SH-SY5Y human neuroblastoma cells have been used for years as a cell-based model of dopaminergic neurons to explore the underlying scientific research of molecular and cellular mechanisms of neurodegeneration in Parkinson’s disease. The enrichment of the KEGG ribosome pathway was detected with considerable downregulation of all the 21 ribosomal healthy proteins in differ-SH-SY5Y neural cells contrasted with undifferentiated cells. Proteomics is data-rich scientific research with complicated speculative layouts and a detailed dimension process. Bayesian stats also provides a modular structure for data analysis by making differences in between specifications and information explicit. SignificanceDeep profiling of the plasma proteome at range has been a difficulty for standard techniques. Our results suggest that nanoparticle functionalization can be tailored to healthy protein sets. Currently, cancer cells is just one of the leading causes of death worldwide, partly owing to the lack of early diagnosis approaches and reliable therapies. With the quick advancement of various omics, the precision medication strategy has come to be an appealing way to enhance survival rates by taking into consideration individual distinctions. Gamma-aminobutyric acid type A receptors, the main repressive neurotransmitter-gated ion networks in the mammalian central anxious system, inhibit neuronal firing to protect well balanced neuronal activity. Maintenance of GABA A receptor healthy protein homeostasis in the cell using its interacting healthy proteins is essential for the function of GABA A receptors. The family Anisakidae, mostly represented by Anisakis simplex s. L. And Pseudoterranova decipiens, incorporates zoonotic nematodes contaminating many aquatic fish. The results confirmed that at the very least 5 A. Simplex allergens have homologous healthy proteins in P. Decipiens; a result that emphasizes the relevance of also including E/S healthy protein removes in proteomic researches.

Please keep in mind that the text is machine-generated by the Brevi Technologies’ Natural language Generation model, and we do not bear any responsibility. The text above has not been edited and/or modified in any way.

Source texts:

• https://europepmc.org/article/MED/35258800–6-Hydroxydopamine Induces Neurodegeneration in Terminally Differentiated SH-SY5Y Neuroblastoma Cells via Enrichment of the Nucleosomal Degradation Pathway: a Global Proteomics Approach.
• https://europepmc.org/article/MED/35258980 — Challenges and Opportunities for Bayesian Statistics in Proteomics.
• https://europepmc.org/article/MED/35275789 — Engineered nanoparticles enable deep proteomics studies at scale by leveraging tunable nano-bio interactions.
• https://europepmc.org/article/MED/35261114 — Progress of Proteomics Driven Precision Medicine-From a glycosylation view.
• https://europepmc.org/article/PPR/PPR466655 — Quantitative interactome proteomics identifies proteostasis network for GABA A receptors.
• https://europepmc.org/article/MED/35260766 — Targeted proteomics and specific immunoassays reveal the presence of shared allergens between the zoonotic nematodes Anisakis simplex and Pseudoterranova decipiens.

Wiley Online Library — summary generated by Brevi Assistant

Rotenone is utilized to generate Parkinson’s disease like signs and symptoms in experimental animals. Our research is the first to report that the modifications in the expressions of proteins associated with energy and redox system, stress response, and cytoskeleton healthy proteins brought on by rotenone exposure were normalized by octanoic acid therapy in zebrafish. The zoonotic Lyme neuroborreliosis condition is triggered by Borrelia burgdorferi, with broad circulation, rapid dissemination and high special needs rate. Two genetics in chemokine path including GRB2 and ROCK2 were significantly up‐regulated after B. Burgdorferi co‐culturing. ATP‐binding cassette carrier G1 is a cellular transmembrane protein that delivers oxysterol efflux from cells to high‐density lipoprotein fragments in the plasma. Here, plasma HDL of ABCG1 mice and their wild‐type controls on a typical chow diet or a high‐fat diet regimen were isolated by ultracentrifugation. Microglia are the fixed resident cells having phagocytic properties in the central nerve system. Lead to this research suggest that BV2 cells just partially model PM and therefore, making use of BV2 in microglia relevant research studies ought to be carefully taken into consideration. Metformin is usual and typically the first medication prescribed for treatment of type 2 diabetes. In spite of numerous research exploring its effects, the proteome adjustments in adipocytes in response to metformin remains poorly recognized. Thyroid blemishes occur in around 60% of the population. A major difficulty in thyroid nodule diagnosis is to distinguish between follicular adenoma and carcinoma.

Please keep in mind that the text is machine-generated by the Brevi Technologies’ Natural language Generation model, and we do not bear any responsibility. The text above has not been edited and/or modified in any way.

Source texts:

• https://onlinelibrary.wiley.com/doi/10.1002/jbt.23024 — Amelioration of rotenone‐induced alterations in energy redox system, stress response and cytoskeleton proteins by octanoic acid in zebrafish: A proteomic study.
• https://onlinelibrary.wiley.com/doi/10.1111/jcmm.17253 — Comparative proteomics profiling revealed the involvement of GRB2‐ROCK2 axis in Lyme neuroborreliosis caused by Borrelia Burgdorferi.
• https://onlinelibrary.wiley.com/doi/10.1002/pmic.202100028 — Effects of ABCG1 knockout on proteomic composition of HDL in mice on a chow diet and a high‐fat diet.
• https://onlinelibrary.wiley.com/doi/10.1111/ejn.15637 — Proteomic dissimilarities of primary microglia and BV2 cells under stimuli.
• https://onlinelibrary.wiley.com/doi/10.1002/pmic.202100196 — Proteomic profiling of metformin effects in 3T3‐L1 adipocytes by SILAC‐based quantification.
• https://onlinelibrary.wiley.com/doi/10.1002/1878-0261.13198 — Stratification of follicular thyroid tumours using data‐independent acquisition proteomics and a comprehensive thyroid tissue spectral library.

Brief Info about Brevi Assistant

The Brevi assistant is a novel way to automatically summarize, assemble, and consolidate multiple text documents, research papers, articles, publications, reports, reviews, feedback, etc., into one compact abstractive form.

At Brevi Assistant, we integrated the most popular open-source databases to empower Researchers, Teachers, and Students to find relevant Contents/Abstracts and to always be up to date about their fields of interest.

Also, users can automate the topics and sources of interest to receive weekly or monthly summaries.