GenomicCompared proteomic changesQuantitativeProteinsPathwaysRevealsTranscriptomicComparativeProteinGenesIntegrativeTumorTandemNeutrophilProteomeAntigenApproachesMacrophagesPurificationFunctionalGenome-wideMolecularWestern blot analysisVivoTranscriptomeChronicCharacterizationMRNA expressionAcuteMassInflammationDysfunctionCellResultsInhibitorMacrophageCellsIdentificationAffinityGeneTranscriptionMeta-analysisStudyIntakePatientsSurvivalData
Genomic7
- Genomic and proteomic: Cells can be assayed for activation of stress pathways using DNA microarrays and protein chips. (wikipedia.org)
- Proteins/genes with a putative catabolic role and bacterium adaptation mechanisms during OPP degradation were identified via genomic and proteomic analysis. (nature.com)
- Genomic analysis identified two orthologous operons encoding the ortho -cleavage of benzoic acid (BA) ( ben/cat ). (nature.com)
- Proteomic and genomic approaches reveal critical functions of H3K9 methylation and heterochromatin protein-1gamma in reprogramming to pluripotency. (ca.gov)
- Using integrative analysis of genomic, transcriptomic, proteomic, metabolomic and lipidomic profiles, we report a trans-omics landscape for COVID-19. (cdc.gov)
- Integrative genomic analyses identify susceptibility genes underlying COVID-19 hospitalization. (cdc.gov)
- Genomic and proteomic possible the ultimate eradication analysis and microarray surveys have demonstrated of smallpox. (cdc.gov)
Compared proteomic changes1
- Finally, to assess the translatability of our data, we compared proteomic changes in our mouse model with those reported in autopsied human samples of Chronic Traumatic Encephalopathy (CTE) patients compared to controls. (biomedcentral.com)
Quantitative4
- RESULTS: To further characterize global ERK1/2-induced changes in membrane protein phosphorylation within human RBCs, a label-free quantitative phosphoproteomic analysis was applied to sickle and normal RBC membrane ghosts pre-treated with U0126, a specific inhibitor of MEK1/2, the upstream kinase of ERK1/2, in the presence or absence of recombinant active ERK2. (duke.edu)
- We overcome these hurdles by increasing affinity-purification efficiency and employing quantitative proteomic analysis to reduce and effectively screen out contaminants. (mdanderson.org)
- We performed a quantitative proteomic analysis in osteoarthritic and normal chondrocytes followed by functional analyses to investigate proteome changes and molecular pathways involved in OA pathogenesis. (biomedcentral.com)
- Here we used quantitative mass spectrometry and coexpression network analysis to conduct the largest proteomic study thus far on AD. (emtherapro.com)
Proteins17
- A set of tools for detecting differentially abundant peptides and proteins in shotgun mass spectrometry-based proteomic experiments with tandem mass tag (TMT) labeling. (bioconductor.org)
- Targeted proteomics analysis of the prioritized proteins in saliva, combined with machine-learning methods, highlights a peptide-based signature as the most powerful predictor to distinguish patients with and without lymph node metastasis. (nature.com)
- The differential abundance proteins from KBD and OA were validated using western blot analysis. (nature.com)
- GO analysis shows that the differential abundant proteins are associated with cell junction and signal transducer activity from extracellular to intracellular. (nature.com)
- The present work deals with the characterization of the proteins which are secreted upon activation of human neutrophils by ionomycin and calcium. (nih.gov)
- We identified a total of 587 glycoproteins, including 1239 glycopeptides, 526 monosaccharide components, and 8326 intact glycopeptides in glycoproteomics, as well as a total of 4496 proteins identified in proteomic analysis. (frontiersin.org)
- Saliva was analyzed by two-dimensional liquid chromatography and tandem mass spectrometry for proteomic identification of salivary proteins associated with oral Candidiasis. (scienceblog.com)
- Functional proteomics is aimed to understand proteins' biological function and their regulation by studying protein-protein interactions within and among multiprotein complexes through affinity purification and mass spectrometric analysis. (mdanderson.org)
- Because of the low abundance of most native ion channel proteins in mammalian cells, the purified native ion channel complexes are commonly contaminated by an overwhelming number and/or amount of non-specifically co-purified proteins, which makes the downstream mass-spectrometric and functional analyses very difficult. (mdanderson.org)
- Proteomic analysis reveals an overall increase in acute phase proteins, including C-reactive protein. (ox.ac.uk)
- We also used WebGestalt, a web-based enrichment tool for the functional annotation and pathway analysis of the differentially synthesized proteins, using the Wikipathways database. (biomedcentral.com)
- The proteomic analysis led to the identification of a total of ~2400 proteins. (biomedcentral.com)
- We also compared canonical pathway activation associated with either total proteins or phosphoproteins and revealed that they both are upregulated at 24 weeks. (biomedcentral.com)
- Functional analysis and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis resulted in the differentially expressed proteins in the FM and OA groups are mostly involved in the coagulation and complement system-related pathways, serotonin pathways, dopamine pathways, glutamate pathways and acute phase reactions. (ncl.edu.tw)
- Bioinformatic analysis of the proteomes revealed shared Gene Ontology (GO) terms and signaling pathways within the clusters of co-expressed proteins (Tables 1-3 and S4. (lu.se)
- We achieved a deep proteome profiling of EBP across the three groups with proteins involved in immune activation, acute phase response, cell adhesion, blood coagulation, and known components of the respiratory tract lining fluid, among others. (lu.se)
- In conclusion, this is a hypothesis generating study that is the first of its kind to identify plasma proteins and proteomic signatures that are associated with added sugar and SSB intake. (lu.se)
Pathways4
- Five of the 6 most significant gene ontology pathways involve inflammation and activation of the immune response with CD28 and CTLA signaling of Tcells. (scienceblog.com)
- Network-Based Assessment of Minimal Change Disease Identifies Glomerular Response to IL-7 and IL-12 Pathways Activation as Innovative Treatment Target. (uib.no)
- In vivo dual-tagging proteomic approach in studying signaling pathways in immune response. (nih.gov)
- Further study revealed that the mechanism through which damaged mtDNA causes pathology in healthy neurons involves dual activation of Toll-like receptor (TLR) 9 and 4 pathways, leading to increased oxidative stress and neuronal cell death, respectively. (medscape.com)
Reveals2
- Comparative Proteomic Analysis Reveals Novel Insights into the Interaction between Rice and Xanthomonas oryzae pv. (researchsquare.com)
- Glomerular proteomic profiling of kidney biopsies with hypertensive nephropathy reveals a signature of disease progression. (uib.no)
Transcriptomic1
- We describe a transcriptomic and proteomic analysis of the effects of deleting bldA on cellular processes during submerged culture: conditions relevant to the industrial production of antibiotics. (biomedcentral.com)
Comparative1
- Our comparative proteomic analysis of HCC cells grown in culture as monolayers (2D) and spheroids (3D) revealed that argininosuccinate synthase 1 (ASS1) expression was higher in 3D cells than in 2D cells due to upregulated endoplasmic reticulum (ER) stress responses. (biomedcentral.com)
Protein7
- Proteomic results were analyzed with gene ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and protein-protein interactions (PPI). (nature.com)
- Proteomic analysis of ERK1/2-mediated human sickle red blood cell membrane protein phosphorylation. (duke.edu)
- Six extracellular protein genes up-regulated in stomatitis were confirmed within the saliva using proteomic methods. (scienceblog.com)
- Latest proteomic research shows that native ion channels commonly exist as a large functional unit of "signaling complex" consisting of the ion-conducting pore subunits, variable peripheral auxiliary subunits, and interacting protein partners. (mdanderson.org)
- (A) Western blot analysis of cell lysates obtained from RPEp53 −/− , RPEp53 −/− SAS6 −/− , and RPEp53 −/− STIL −/− cells (loaded with equal amounts of total protein) using SAS6, STIL, γ-tubulin, and β-actin antibodies. (life-science-alliance.org)
- Our proteomic analysis of extracellular vesicles containing damaged mtDNA identified the TLR4 activator, ribosomal protein S3, as a key protein involved in recognizing and extruding damaged mtDNA," the investigators write. (medscape.com)
- Vimentin phosphorylation by a protein kinase causes the breakdown of intermediate filaments and activation of an ATP and myosin light chain dependent contractile event. (thermofisher.com)
Genes5
- Transcription analysis of all putative catabolic genes established their role in the metabolism of OPP. (nature.com)
- Genome-wide location analysis revealed that Cbx3 predominantly binds active genes in both pre-iPSCs and pluripotent cells but with a strikingly different distribution: in pre-iPSCs, but not in embryonic stem cells, Cbx3 associates with active transcriptional start sites, suggesting a developmentally regulated role for Cbx3 in transcriptional activation. (ca.gov)
- Microarray analysis of mRNA expression revealed 3034 genes-in-play differentially expressed in C. albicans stomatitis. (scienceblog.com)
- We generate sophisticated genetic mouse models that allow for inactivation or activation of genes of interest specifically in oligodendrocytes or neurons, and then exploit these mouse models to determine the roles of these genes in oligodendrocytes or neurons in mouse models of multiple sclerosis and their underlying mechanisms. (postdocjobs.com)
- Ample evidence shows that pro-atherosclerotic disturbed flow induces sustained activation of atherogenic genes in endothelial cells to promote their oxidation, inflammation, cell cycle progression and proliferation, whereas pulsatile shear stress tends to maintain endothelial cells in a quiescent and less proliferative state with a low level of oxidation and inflammation [16] , [17] . (plos.org)
Integrative1
- Integrative proteomic and precision N-glycoproteomic profiling were conducted to assess the underlying macrophage activation. (frontiersin.org)
Tumor2
- WD increased colon tumor numbers, and mucosa proteomic analysis indicated severe deregulation of intracellular bile acid (BA) homeostasis and activation of cell proliferation. (helsinki.fi)
- ASS1 overexpression effectively inhibited tumor growth and enhanced the efficacy of in vitro and in vivo anti-HCC combination chemotherapy via activation of the PERK/eIF2α/ATF4/CHOP axis, but was not dependent on the status of p53 and arginine metabolism. (biomedcentral.com)
Tandem1
- Currently, analysis by liquid chromatography coupled with tandem mass spectrometry (LC-MS/MS) of intact glycopeptides is often the method of choice in site-specific glycoproteomic studies ( 12 ). (frontiersin.org)
Neutrophil3
- CCL2, CCL7), neutrophil activation (e.g. proteinase-3) and epithelial injury (e.g. (medrxiv.org)
- 2-fold including key cytokines [IL1F6, IL1B], chemokines [CXCL1, CCL10, IL8] as well as markers of epithelial suppression and neutrophil recruitment/ activation. (scienceblog.com)
- Neutrophil recruitment activation, epithelial suppression, TLR2 pathway up-regulation, T cell activation and bone resorption appear as major activation themes in stomatitis. (scienceblog.com)
Proteome2
- We analyzed the proteome of chondrocytes using high resolution mass spectrometry and quantified it by label-free quantification and western blot analysis. (biomedcentral.com)
- Turning to the proteome to elucidate the complex potential relationship between sugar intake and T2D incidence did not provide a clear enlightenment, but despite the fact that no significant associations were observed between added sugar and SSB intake with levels of CRP, the data suggests that SSB intake is related to a T2D-pathological proteomic signature, while this was not observed for added sugar intake. (lu.se)
Antigen1
- Further, B cell antigen receptor (BCR) activation induced proteomic changes were studied in anti-IgM stimulated Ramos B cells in a long time series. (lu.se)
Approaches2
- This review will evaluate the subcellular fractionation protocols and the proteomic approaches employed. (mdpi.com)
- Besides genetic mouse models and primary oligodendrocyte cultures, various neuropathological, behavioral, biochemical and molecular approaches, including RNA sequencing and proteomic analysis, will be used. (postdocjobs.com)
Macrophages4
- Macrophages are important immune cells that participate in both innate and adaptive immune responses, such as phagocytosis, recognition of molecular patterns, and activation of the immune response. (frontiersin.org)
- Macrophages have different activation states in different microenvironments ( 15 ) and pathogenic stimulation ( 16 ). (frontiersin.org)
- Isolated EV fractions were subjected to untargeted proteomic analysis by liquid chromatography mass-spectrometry/mass-spectrometry and then applied to macrophages in culture to investigate inflammatory gene expression. (ox.ac.uk)
- LRRFIP2 negatively regulates NLRP3 inflammasome activation in macrophages by promoting Flightless-I-mediated caspase-1 inhibition. (nih.gov)
Purification1
- Purification and Proteomic Analysis of Plant Plasma Membranes. (lu.se)
Functional2
Genome-wide1
- Recent advances in genome-wide and comprehensive molecular analyses have demonstrated that both genetic and epigenetic changes contribute to EBVaGC carcinogenesis. (spandidos-publications.com)
Molecular2
- In addition to accumulating more case series of EBV-associated gastric carcinoma (EBVaGC), the development of comprehensive molecular analyses has provided evidence that EBVaGC is a distinct subset both in terms of its clinicopathological and molecular features. (spandidos-publications.com)
- In addition we have recently started to explore the structure and molecular function of pain receptors from animals, i.e. transient receptor potential (TRP) ion channels, and their activation by temperature and various ligands. (lu.se)
Western blot analysis1
- 33-9100 has been successfully used in ELISA, Immunofluorescence and Western Blot analysis of ZO-1. (thermofisher.com)
Vivo1
- outlined only ten TBI-related published proteomic studies, five of which were conducted in human samples (TBI, AD or CTE), two in in-vitro models and three in in-vivo animal models [ 10 ]. (biomedcentral.com)
Transcriptome4
- The goal of the study was to compare whole-transcriptome, mucosal gene expression in Candida albicans (a parasitic fungus that can infect the mouth) associated chronic denture stomatitis to that of healthy oral mucosa and perform proteomic analyses of potential salivary biomarkers. (scienceblog.com)
- In this study, oral palatal biopsies were obtained from 17 healthy and 15 C. albicans-infected stomatitis subjects for whole-transcriptome analyses using Affymetrix arrays. (scienceblog.com)
- Systems analyses of the Fabry kidney transcriptome and its response to enzyme replacement therapy identified and cross-validated enzyme replacement therapy-resistant targets amenable to drug repurposing. (uib.no)
- Systems Analyses of Renal Fabry Transcriptome and Response to Enzyme Replacement Therapy (ERT) Identifies a Cross-Validated and Druggable ERT-Resistant Module. (uib.no)
Chronic1
- Complement activation occurs in progressive chronic kidney disease and may contribute to the chronic inflammation that is characteristically found in the kidney. (wjgnet.com)
Characterization1
- Mass spectrum-based high-throughput characterization of glycosylation as well as proteomic analysis has been used for years ( 7 - 11 ). (frontiersin.org)
MRNA expression1
- RNA-sequence analysis revealed that curcumin intake affected hepatic lipid metabolism via the peroxisome proliferator-activated receptor (PPAR) pathway, especially PPARα activation, resulting in increased Apoa2 mRNA expression. (elifesciences.org)
Acute1
- Using multiwalled carbon nanotube s (MWCNT) via pulmonary delivery in mice, we observed acute deficits in blood brain barrier, activation of astrocytes, and induction of cortical CCL5 and interleukin-6 (IL6) mRNA that were abrogated by coadministration of a rho kinase inhibitor that improves endothelial barrier integrity. (cdc.gov)
Mass3
- Mass spectrometry and lectin arrays are common technologies publicly adopted in glycosylation analysis. (frontiersin.org)
- Dr. Thompson's research focuses on the development and deployment of proteomics and metabolomics mass spectrometry techniques for the analysis of biological systems. (duke.edu)
- Along the present thesis, we compared bladder cancer cells (T24) treated with 5-ALA, SA (inhibitor of HMBS) to non-treated cells, employing proteomic mass spectrometry analysis. (unige.ch)
Inflammation2
- In this review we discuss current evidence that complement activation contributes to progression of CKD, how complement could cause renal inflammation and whether complement inhibition would slow progression of renal disease. (wjgnet.com)
- It is therefore possible that inhibiting complement activation would reduce inflammation, lead to reduced fibrosis and preservation of renal function. (wjgnet.com)
Dysfunction1
- Proteomic analysis unveils Gb3-independent alterations and mitochondrial dysfunction in a gla−/− zebrafsh model of Fabry disease. (uib.no)
Cell1
- To view the results, click on 2D-DIGE analysis of B cell maturation. (lu.se)
Results1
- The coexpression of DEAF-1 with Dorsal, Dif, and Relish results in the synergistic activation of transcription. (sdbonline.org)
Inhibitor1
- LRRFIP2 inhibits NLRP3 inflammasome activation by recruiting the caspase-1 inhibitor Flightless-I, thus outlining a new mechanism for negative regulation of NLRP3 inflammasome. (nih.gov)
Macrophage2
- New technology for glycomic and glycoproteomic analysis has been used in macrophage research. (frontiersin.org)
- IL-23, chitinases, and other indicators of alternative macrophage activation. (cdc.gov)
Cells3
- Flow Cytometry: Automation allows for analysis of thousands of cells per second. (wikipedia.org)
- En face co-immunostaining of the mouse aortic arch revealed a low level of PDCD4 in endothelial cells undergoing pulsatile shear stress. (plos.org)
- Gain of SLC38A9 function rendered cells resistant to amino acid withdrawal, whereas loss of SLC38A9 expression impaired amino-acid-induced mTORC1 activation. (ox.ac.uk)
Identification1
- performs statistical analysis steps, that follow peptide identification and quantitation. (bioconductor.org)
Affinity1
- Lectin array technology is based on the lectin-glycan affinity ( 6 ), which is not suitable for glycoproteomic analysis. (frontiersin.org)
Gene2
- Barcelona, Spain - Today during the 88th General Session & Exhibition of the International Association for Dental Research, in Barcelona, Spain, S. Offenbacher will present an abstract titled "Mucosal Gene Expression and Salivary Proteomic Analysis of Candidiasis-Associated Denture-Stomatitis. (scienceblog.com)
- This is a summary of abstract #2012, "Mucosal Gene Expression and Salivary Proteomic Analysis of Candidiasis-Associated Denture-Stomatitis," to be presented by S. Offenbacher at 9 a.m., Friday, July 16, 2010 in Room 117 of the Centre Convencions Internacional Barcelona, Spain during the 88th General Session & Exhibition of the International Association for Dental Research. (scienceblog.com)
Transcription1
- Transcription analysis verified the key role of the catabolic operons located in the 92-kb scaffold, and flanked by transposases, on the transformation of OPP by S. haloaromaticamans . (nature.com)
Meta-analysis5
- Between 2010 and 2017, an independent meta-analysis by Ganau et al. (biomedcentral.com)
- Postdiagnosis dietary factors, supplement use and breast cancer prognosis: Global Cancer Update Programme (CUP Global) systematic literature review and meta-analysis. (who.int)
- Postdiagnosis recreational physical activity and breast cancer prognosis: Global Cancer Update Programme (CUP Global) systematic literature review and meta-analysis. (who.int)
- Postdiagnosis body fatness, weight change and breast cancer prognosis: Global Cancer Update Program (CUP global) systematic literature review and meta-analysis. (who.int)
- Physical Activity and Health-Related Quality of Life in Women With Breast Cancer: A Meta-Analysis. (who.int)
Study1
- The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript. (plos.org)
Intake1
- This indicates that SSB intake associates with a T2D-pathological proteomic profile, while this cannot be stated for added sugar intake. (lu.se)
Patients1
- Our analyses find neutrophils heterogeneity between asymptomatic and critically ill patients. (cdc.gov)
Survival1
- Survival analysis with joint models revealed 69 predictors of death. (medrxiv.org)
Data1
- Networks and Graphs Discovery in Metabolomics Data Analysis and Interpretation. (who.int)