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1,448 results for “proteomic”
Genomic atlas of the human proteome from brain, CSF and plasma: Improvement with TOPMed imputed genomics
<p>Abstract</p> <p>Comprehensive expression quantitative trait loci (eQTL) studies have been instrumental for understanding tissue-specific gene regulation and pinpointing functional genes for disease-associated GWAS loci in a tissue-specific manner. Compared to gene expressions, proteins more directly affect various biological processes, often dysregulated in disease, and are important drug targets. We previously performed and identified tissue-specific protein QTL (pQTL) in neurologically relevant tissues. We now enhance this work by analyzing more proteins (1,300 versus 1,079) and an almost twofold increase in high-quality imputed genetic variants (8.4 million versus 4.4 million) by using TOPMed reference panel. We identified 38 genomic regions associated with 43 proteins in brain, 150 regions associated with 247 proteins in CSF, and 95 regions associated with 145 proteins in plasma. Compared to our previous study, this study newly identified 12 pQTL in brain, 30 pQTL in CSF, and 22 pQTL in plasma. Our improved genomic atlas uncovers the genetic control of protein regulation across multiple tissues. These pQTL findings are assessable through the Online Neurodegenerative Trait Integrative Multi-Omics Explorer (ONTIME) for use by the scientific community.</p>
Genomic atlas of the human proteome from brain, CSF and plasma: Improvement with TOPMed imputed genomics
<p>Abstract</p> <p>Comprehensive expression quantitative trait loci (eQTL) studies have been instrumental for understanding tissue-specific gene regulation and pinpointing functional genes for disease-associated GWAS loci in a tissue-specific manner. Compared to gene expressions, proteins more directly affect various biological processes, often dysregulated in disease, and are important drug targets. We previously performed and identified tissue-specific protein QTL (pQTL) in neurologically relevant tissues. We now enhance this work by analyzing more proteins (1,300 versus 1,079) and an almost twofold increase in high-quality imputed genetic variants (8.4 million versus 4.4 million) by using TOPMed reference panel. We identified 38 genomic regions associated with 43 proteins in brain, 150 regions associated with 247 proteins in CSF, and 95 regions associated with 145 proteins in plasma. Compared to our previous study, this study newly identified 12 pQTL in brain, 30 pQTL in CSF, and 22 pQTL in plasma. Our improved genomic atlas uncovers the genetic control of protein regulation across multiple tissues. These pQTL findings are assessable through the Online Neurodegenerative Trait Integrative Multi-Omics Explorer (ONTIME) for use by the scientific community.</p>
Genomic atlas of the human proteome from brain, CSF and plasma: Improvement with TOPMed imputed genomics
<p>Abstract</p> <p>Comprehensive expression quantitative trait loci (eQTL) studies have been instrumental for understanding tissue-specific gene regulation and pinpointing functional genes for disease-associated GWAS loci in a tissue-specific manner. Compared to gene expressions, proteins more directly affect various biological processes, often dysregulated in disease, and are important drug targets. We previously performed and identified tissue-specific protein QTL (pQTL) in neurologically relevant tissues. We now enhance this work by analyzing more proteins (1,300 versus 1,079) and an almost twofold increase in high-quality imputed genetic variants (8.4 million versus 4.4 million) by using TOPMed reference panel. We identified 38 genomic regions associated with 43 proteins in brain, 150 regions associated with 247 proteins in CSF, and 95 regions associated with 145 proteins in plasma. Compared to our previous study, this study newly identified 12 pQTL in brain, 30 pQTL in CSF, and 22 pQTL in plasma. Our improved genomic atlas uncovers the genetic control of protein regulation across multiple tissues. These pQTL findings are assessable through the Online Neurodegenerative Trait Integrative Multi-Omics Explorer (ONTIME) for use by the scientific community.</p>
Genomic atlas of the human proteome from brain, CSF and plasma: Improvement with TOPMed imputed genomics
<p>Abstract</p> <p>Comprehensive expression quantitative trait loci (eQTL) studies have been instrumental for understanding tissue-specific gene regulation and pinpointing functional genes for disease-associated GWAS loci in a tissue-specific manner. Compared to gene expressions, proteins more directly affect various biological processes, often dysregulated in disease, and are important drug targets. We previously performed and identified tissue-specific protein QTL (pQTL) in neurologically relevant tissues. We now enhance this work by analyzing more proteins (1,300 versus 1,079) and an almost twofold increase in high-quality imputed genetic variants (8.4 million versus 4.4 million) by using TOPMed reference panel. We identified 38 genomic regions associated with 43 proteins in brain, 150 regions associated with 247 proteins in CSF, and 95 regions associated with 145 proteins in plasma. Compared to our previous study, this study newly identified 12 pQTL in brain, 30 pQTL in CSF, and 22 pQTL in plasma. Our improved genomic atlas uncovers the genetic control of protein regulation across multiple tissues. These pQTL findings are assessable through the Online Neurodegenerative Trait Integrative Multi-Omics Explorer (ONTIME) for use by the scientific community.</p>
Genomic atlas of the human proteome from brain, CSF and plasma: Improvement with TOPMed imputed genomics
<p>Abstract</p> <p>Comprehensive expression quantitative trait loci (eQTL) studies have been instrumental for understanding tissue-specific gene regulation and pinpointing functional genes for disease-associated GWAS loci in a tissue-specific manner. Compared to gene expressions, proteins more directly affect various biological processes, often dysregulated in disease, and are important drug targets. We previously performed and identified tissue-specific protein QTL (pQTL) in neurologically relevant tissues. We now enhance this work by analyzing more proteins (1,300 versus 1,079) and an almost twofold increase in high-quality imputed genetic variants (8.4 million versus 4.4 million) by using TOPMed reference panel. We identified 38 genomic regions associated with 43 proteins in brain, 150 regions associated with 247 proteins in CSF, and 95 regions associated with 145 proteins in plasma. Compared to our previous study, this study newly identified 12 pQTL in brain, 30 pQTL in CSF, and 22 pQTL in plasma. Our improved genomic atlas uncovers the genetic control of protein regulation across multiple tissues. These pQTL findings are assessable through the Online Neurodegenerative Trait Integrative Multi-Omics Explorer (ONTIME) for use by the scientific community.</p>
Genomic atlas of the human proteome from brain, CSF and plasma: Improvement with TOPMed imputed genomics
<p>Abstract</p> <p>Comprehensive expression quantitative trait loci (eQTL) studies have been instrumental for understanding tissue-specific gene regulation and pinpointing functional genes for disease-associated GWAS loci in a tissue-specific manner. Compared to gene expressions, proteins more directly affect various biological processes, often dysregulated in disease, and are important drug targets. We previously performed and identified tissue-specific protein QTL (pQTL) in neurologically relevant tissues. We now enhance this work by analyzing more proteins (1,300 versus 1,079) and an almost twofold increase in high-quality imputed genetic variants (8.4 million versus 4.4 million) by using TOPMed reference panel. We identified 38 genomic regions associated with 43 proteins in brain, 150 regions associated with 247 proteins in CSF, and 95 regions associated with 145 proteins in plasma. Compared to our previous study, this study newly identified 12 pQTL in brain, 30 pQTL in CSF, and 22 pQTL in plasma. Our improved genomic atlas uncovers the genetic control of protein regulation across multiple tissues. These pQTL findings are assessable through the Online Neurodegenerative Trait Integrative Multi-Omics Explorer (ONTIME) for use by the scientific community.</p>
Proteomics study of Mongolian medicine warm acupuncture in the treatment of insomnia
<p>Warm acupuncture therapy is a traditional external therapy method that has a definite clinical effect in the treatment of insomnia, but the underlying neural molecules regulation research remains limited. iTRAQ-based quantitative proteomics to find proteins that are potential neural molecules involved in the treatment of insomnia by Mongolian medical warm acupuncture. In this study, 6383 proteins were identified, including 45 proteins with increased expression and 31 proteins with decreased expression in M compared to C, 101 proteins showed an increase and 48 proteins showed a decrease from W compared to C, 26 proteins showed an increase and 22 proteins showed a decrease from W compared to M. GO and KEGG analysis showed that warm acupuncture treatment of insomnia was closely related to metabolism and hormone synthesis. Different expression proteins showed that increase/decrease expression included albumin (ALB), Pro-MCH (PMCH), Acetoacetyl-CoA synthetase (AACS), N-ethylmaleimide sensitive factor NSF (NSF), Potassium/sodium hyperpolarization-activated cyclic-nucleotide gated channel 4 (HCN4) and Anamorsin (Ciapin1) would be the important proteins for warm acupuncture to treat insomnia. The iTRAQ-based proteomics data analyses presented here elucidate variations of the proteomics involved in the treatment of insomnia by Mongolian medical warm acupuncture.</p>
High though-put proteomics analysis of dental plaque cultured on Ti40Zr10Cu36Pd14 bulk metallic glass and Ti6Al4V surface
<p>High though-put proteomics analysis of dental plaque cultured on Ti40Zr10Cu36Pd14 bulk metallic glass and Ti6Al4V surface</p>
Proteomic profiling of survivors of SARS-CoV-2-induced ARDS
<p>Around 80% of patients who develop acute respiratory distress syndrome (ARDS) secondary to SARS-CoV-2 infection experience persistent lung dysfunction. The molecular factors that mediate pulmonary sequelae and recovery are unknown.<strong> </strong>In this context, we sought to comprehensively characterize the proteomic determinants of pulmonary diffusion impairment.<strong> </strong></p> <p>This was a prospective cohort study including eighty-seven SARS-CoV-2–induced ARDS survivors. A complete pulmonary function evaluation and chest computed tomography (CT) were performed 3 months after hospital discharge. Proteomic profiling (364 proteins) was performed in plasma samples using proximity extension assay (PEA) technology. Partial least squares-discriminant analysis (PLS-DA) and random forest (RF) methods were used to assess predictor importance.</p> <p>Thirty percent of patients presented moderate to severe impairment of lung diffusing capacity (D<sub>LCO</sub><60% predicted). In the univariate analysis, fifteen proteins showed high concentrations in patients with D<sub>LCO</sub><60% [false discovery rate (FDR)<0.05]. Pleiotrophin (PTN) displayed the highest differences: fold change=2.22 and FDR=0.001. Differentially detected proteins showed an inverse and independent dose–response relationship with D<sub>LCO</sub>. The multivariable approaches clustered proteins according to the severity of diffusion impairment. Clusters were composed of host mediators of cell proliferation and differentiation, tissue remodeling, angiogenesis, coagulation, inflammation, immune response and fibrosis signaling.</p> <p>In survivors of SARS-CoV-2–induced ARDS, lung diffusion impairment is associated with specific circulating factors implicated in multiple injury and repair mechanisms. The host protein signatures allow a better understanding of pulmonary sequelae and may constitute therapeutic targets and biomarkers. The long-term biological and clinical significance of these observations requires further investigation.</p>
Data from: Transcriptome and exosome proteome analyses provide insights into the mantle exosome involved in nacre color formation of pearl oyster Pinctada fucata martensii
<p>The pearl oyster <em>Pinctada fucata martensii</em> is an economically important species of marine pearl culture, and tissue of mantle plays an essential role in pearl formation. Here, the extracted exosomes from mantle of <em>P. f. martensii</em> were analyzed by quantitative protein TMT sequencing. We wanted to verify if exosomes are the important vehicle in the process of biomineralization (e.g., pearl and shell formation), especially the color formation in shellfish. Finally, we got some results which indicated the importance of exosomes in sides of proteins, and it can also contribute to other researches related to the exosomes or pearl oyster.</p>
Exploring the anti-glioma mechanism of the active components of Cortex Periplocae based on network pharmacology and iTRAQ proteomics in vitro
<p>Hierarchical clustering analysis of candidate proteins was illustrated in heat map, which showed obvious differences between CP-induced cells and controls (Fig. 6). Each column is a sample and each rowindicates a differentially expressed protein. Log values (log<sub>2</sub>expression) of significantly differentially expressed proteins in different samples are displayed in heat maps in different colors. GreenandRedrepresent up-regulation and down-regulation, respectively. The gray part represents no quantitative information of the proteins. T1, T2 and T3 means the CP-treated U251 cells group and C2, C2 and C3 means control group (n=3).</p>
Beyond EOsinophils: proteoMICS to Identify Potential Biomarker of Organ Damage and Response to MEPOLIZUMAB in EGPA
ClinicalTrials.gov study NCT07343661. IPD Sharing: NO. Countries: 1. Publications: 6.
Study on Proteomic and Microbiome Changes in Patients With Hepatic Encephalopathy (HE)
ClinicalTrials.gov study NCT07150195. IPD Sharing: UNDECIDED. Countries: 1. Publications: 5.
Ultrasound and Proteomics for Guselkumab Response Assessment in Crohn's Disease (UPGRADE).
ClinicalTrials.gov study NCT07246460. IPD Sharing: NO. Countries: 1. Publications: 2.
Exosomes Proteomic for Sjogren's Syndrome and Dry Eye Syndrome
ClinicalTrials.gov study NCT06771427. IPD Sharing: UNDECIDED. Countries: 1. Publications: 2.
Urinary Proteomics Combined With Home Blood Pressure Telemonitoring for Health Care Reform
ClinicalTrials.gov study NCT04299529. IPD Sharing: YES. Countries: 9. Publications: 1.
Reassessment of the proteomic composition and function of extracellular vesicles in the seminal plasma
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Serum proteomic analysis of sex differences during an acute low back pain episode
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Data from: Proteomic fingerprinting enables quantitative biodiversity assessments of species and ontogenetic stages in Calanus congeners (Copepoda, Crustacea) from the Arctic Ocean
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RNA-seq and label-free quantitative proteomics data from: KDM4A serves as an α-tubulin demethylase regulating microtubule polymerization and cell mitosis
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.