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808 results for “inflammatory cells”
Transcriptional profiling of peripheral blood mononuclear cells identifies inflammatory phenotypes in ataxia telangiectasia
<p>This is an AnnData object in h5ad (hdf5) format containing de-identified bulk RNA-seq gene expression matrices from PBMCs. These data are related to the study entitled "Transcriptional profiling of peripheral blood mononuclear cells identifies inflammatory phenotypes in ataxia telangiectasia". </p><p>This AnnData object contains a table of sample-specific metadata (`obs`), gene-specific metadata (`var`), and multiple gene expression matrices stored as `layers`. These layers include raw counts, DEseq2 normalized counts, vst normalized counts, and rlog normalized counts. Some additional layers include regressed versions of the previously mentioned counts matrices, where sequencing batch (`cohort` in the obs table) has been regressed out using the `combat` tool. The layer `rlog_combat_regressed_batch` is recommended for downstream processing, and has been loaded into the `X` slot of the anndata object for convenience. </p><p>The md5sum of this h5ad file is listed here: 04d7c6c549fb37cf730a5dca7897f86f</p><p>Opening and working with AnnData objects in h5ad format requires the use of the `anndata` python library (https://github.com/scverse/anndata). </p>
A pro-inflammatory stem cell niche drives myelofibrosis through a targetable galectin-1 axis
<p><span>Myeloproliferative neoplasms are stem cell-driven cancers associated with a large burden of morbidity and mortality. The majority of <a>patients p</a></span><span>resent with early-stage disease, but a substantial proportion progress to myelofibrosis and/or secondary leukemia, advanced cancers with a poor prognosis and high symptom burden. Currently, it remains difficult to predict progression, and therapies that reliably prevent or reverse fibrosis are lacking. A major bottleneck to the discovery of disease-modifying therapies has been an incomplete understanding of the interplay between perturbed cellular and molecular states. </span><span>Several cell types have individually been implicated, but a comprehensive analysis of myelofibrotic bone marrow is lacking. We therefore mapped the crosstalk between bone marrow cell types in myelofibrotic bone marrow. We found that inflammation and fibrosis are orchestrated by a ‘quartet’ of immune and stromal cell lineages – with basophils and mast cells creating a TNF signaling hub, communicating with megakaryocytes, mesenchymal stromal cells and pro-inflammatory fibroblasts. We identified the </span><span>b</span><span>-galactoside binding protein galectin-1 as a striking biomarker of progression to myelofibrosis and poor survival in multiple patient cohorts, and as a promising therapeutic target, with reduced myeloproliferation and fibrosis </span><a><span>in vitro</span></a><span> and </span><span>in vivo </span><span>and improved survival following galectin-1 inhibition. In human bone marrow organoids, TNF increased galectin-1 expression, suggesting a feedback loop wherein the pro-inflammatory MPN clone creates a self-reinforcing niche, fueling progression to advanced disease. This study pr</span><span>ovides a valuable resource for studying hematopoietic cell-niche interactions, with broad relevance for cancer-associated inflammation and disorders of tissue fibrosis. </span></p>
Vizgen MERFISH files for Single-cell analysis reveals M. tuberculosis ESX-1-mediated accumulation of anti-inflammatory macrophages in infected mouse lungs
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Single-cell analysis reveals M. tuberculosis ESX-1-mediated accumulation of anti-inflammatory macrophages in infected mouse lungs
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Single cell transcriptomics unveiled that early life BDE-99 exposure reprogrammed the gut-liver axis to promote a pro-inflammatory metabolic signature in male mice at late adulthood (Part 1/2)
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Single cell transcriptomics unveiled that early life BDE-99 exposure reprogrammed the gut-liver axis to promote a pro-inflammatory metabolic signature in male mice at late adulthood (Part 2/2)
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Supplemental information for: Inhibition of CSF1R and KIT with pexidartinib reduces inflammatory signaling and cell viability in endometriosis
<p>Endometriosis is a common and debilitating disease, affecting ~170 million women worldwide. Affected patients have limited therapeutic options such as hormonal suppression or surgical excision of the lesions, though therapies are often not completely curative. Targeting receptor tyrosine-kinases (RTKs) could provide a nonhormonal treatment option for endometriosis. We determined that two RTKs, Macrophage colony stimulating factor receptor (CSF1R) and Mast/stem cell growth factor receptor KIT (KIT), are overexpressed in endometriotic lesions and could be novel nonhormonal therapeutic targets for endometriosis. The kinase activity of CSF1R and KIT is suppressed by pexidartinib, a small molecule inhibitor that was recently approved by the US Food and Drug Administration (FDA). Using immunohistochemistry, we detected CSF1R and KIT in endometriotic tissues obtained from peritoneal lesions, colorectal lesions, and endometriomas. Specifically, we show that KIT is localized to the epithelium of the lesions, while CSF1R is expressed in the stroma and macrophages of the endometriotic lesions. Given the high epithelial expression of CSF1R and KIT, 12Z endometriotic epithelial cells were used to evaluate the efficacy of dual CSF1R and KIT inhibition with pexidartinib. We found that pexidartinib suppressed activation in 12Z cells of JNK, STAT3 and AKT signaling pathways, which control key pro-inflammatory and survival networks within the cell. Using quantitative real time PCR, we determined that pexidartinib suppressed interleukin 8 (<em>IL8) </em>and cyclin D1 (<em>CCND1) </em>expression<em>.</em> Lastly, we demonstrated that pexidartinib decreased cell growth and viability.<em> </em>Overall, these results indicate that pexidartinib-mediated CSF1R and KIT inhibition reduces pro-inflammatory signaling and cell viability in endometriosis.</p>
Hematopoietic Stem Cell Transplantation in Chronic Inflammatory Demyelinating Polyneuropathy
ClinicalTrials.gov study NCT00278629. IPD Sharing: NO. Countries: 1. Publications: 1.
Fixed Dose Flavonoid Isoquercetin on Thrombo-Inflammatory Biomarkers in Subjects With Stable Sickle Cell Disease
ClinicalTrials.gov study NCT04514510. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Inflammatory cells and remodeling in bronchial biopsies from COPD patients and controls
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Supplemental information for: Inhibition of CSF1R and KIT with pexidartinib reduces inflammatory signaling and cell viability in endometriosis
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Increased sCD163 and sCD14 plasmatic levels and depletion of peripheral blood pro-inflammatory monocytes, myeloid and plasmacytoid dendritic cells in patients with severe COVID-19 pneumonia
<p><strong>Background: </strong>Emerging evidence argues that monocytes, circulating innate immune cells, are principal players in COVID-19 pneumonia. The study aimed to investigate the role of soluble (s)CD163 and sCD14 plasmatic levels in predicting disease severity and characterize peripheral blood monocytes and dendritic cells (DCs), in patients with COVID-19 pneumonia (COVID-19 subjects). </p> <p><strong>Methods:</strong> On admission, in COVID-19 subjects sCD163 and sCD14 plasmatic levels, and peripheral blood monocyte and DC subsets were compared to healthy donors (HDs). According to clinical outcome, COVID-19 subjects were divided into ARDS and non-ARDS groups. </p> <p><strong>Results:</strong> Compared to HDs, COVID-19 subjects showed higher sCD163 (p<0.0001) and sCD14 (p<0.0001) plasmatic levels. We observed higher sCD163 plasmatic levels in the ARDS group compared to the non-ARDS one (p=0.002). The cut-off for sCD163 plasmatic level greater than 2032 ng/ml was predictive of disease severity (AUC: 0.6786, p=0.0022; sensitivity 56.7% [CI: 44.1-68.4] specificity 73.8% [CI: 58.9-84.7]). Positive correlation between plasmatic levels of sCD163, LDH and IL-6 and between plasmatic levels of sCD14, D-dimer and ferritin were found. Compared to HDs, COVID-19 subjects showed lower percentages of non-classical (p=0.0012) and intermediate monocytes (p=0.0447), slanDCs (p<0.0001), myeloid DCs (mDCs, p<0.0001) and plasmacytoid DCs (pDCs, p=0.0014). Compared to the non-ARDS group, the ARDS group showed lower percentages of non-classical monocytes (p=0.0006), mDCs (p=0.0346) and pDCs (p=0.0492). </p> <p><strong>Conclusions:</strong> The increase in sCD163 and sCD14 plasmatic levels, observed on hospital admission in COVID-19 subjects, especially in those who developed ARDS, and the correlations of these monocyte/macrophage activation markers with typical inflammatory markers of COVID-19 pneumonia, underline their potential use to assess the risk of progression of the disease. In an early stage of the disease, the assessment of sCD163 plasmatic levels could have clinical utility in predicting the severity of COVID-19 pneumonia. </p>
Transcriptome analysis of immune-inflammatory regulation in Tremella Fuciformis-derived Polysaccharide reeducated B16 cells subcutaneous model
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Cartilage Responses to Inflammatory Stimuli and Adipose Stem/Stromal Cell-Derived Conditioned Medium: Results from an Ex Vivo Model
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A longitudinal single-cell atlas of anti-tumour necrosis factor treatment in inflammatory bowel disease
<p>***<strong>These data supersede the previous release. Please disregard data uploaded prior to October 30th as the metadata was incorrect - note the correct data in Supplementary Table 1</strong>***</p> <p>A longitudinal single-cell atlas of anti-tumour necrosis factor treatment in inflammatory bowel disease. </p> <p>GEO ID for bam files and CellRanger pipeline output (filtered and unfiltered): <strong>GSE282122</strong></p> <p>TAURUS_raw_counts_annotated_final.h5ad: This file is the pooled data across all cell types</p> <p>UMAP_combined_objects.txt.gz: This file has the corresponding UMAP for pooled data</p> <p>PC_combined_objects.txt.gz: This file has the corresponding PC for pooled data</p> <p>paired_sample_list.csv: This file has the paired samples used in analysis for baseline/longitudinal analysis. For baseline analyses, please use baseline samples > 6.5 inflammation score to recapitulate the analyses in the paper.</p> <p>Other data to be uploaded to Zenodo include H&E slides. Please access interactive MDV browser here.</p>
IL-18 couples innate and adaptive immune cell activation in acute multisystem inflammatory syndrome in children (MIS-C)
<p>This repository contains the scRNA-Seq data (including TCR-Seq and BCR-Seq data) set used in the manuscript titled "IL-18 couples innate and adaptive immune cell activation in acute multisystem inflammatory syndrome in children (MIS-C)". This dataset is generated from 10x cell ranger software. In the study, we have 10 PBMC samples, from 5 MIS-C children at paired time points. T1 stands for admission time and T3 follow-up time, about 1 month post hospital discharge. </p>
Fig. 6 in Glycoglycerolipids from the leaves of Perilla frutescens (L.) Britton (Labiatae) and their anti-inflammatory activities in lipopolysaccharide-stimulated RAW264.7 cells
Fig. 6. Inhibitory effects of three glycoglycerolipids on pro-inflammatory cytokines (IL-6, TNF-α, and IL-1β) secretion in 200 ng/ml LPS-stimulated murine macrophages RAW 264.7 cells after 24 h incubation. Different lowercase letters above the bars represented the significant difference (P <0.05) (+: presence; -: absence).
Fig. 5 in Glycoglycerolipids from the leaves of Perilla frutescens (L.) Britton (Labiatae) and their anti-inflammatory activities in lipopolysaccharide-stimulated RAW264.7 cells
Fig. 5. Inhibitory effects of three glycoglycerolipids from Perilla frutescens leaves on the production of NO in 200 ng/ml LPS-stimulated murine macrophages RAW 264.7 cells. Different lowercase letters above the bars represented the significant difference (P <0.05) (+: presence; -: absence).
Fig. 3. 2D in Glycoglycerolipids from the leaves of Perilla frutescens (L.) Britton (Labiatae) and their anti-inflammatory activities in lipopolysaccharide-stimulated RAW264.7 cells
Fig. 3. 2D NMR spectra of compounds 1, 2 and 3 and structure of compounds 1. (A) Partial HMQC NMR spectrum of compound 1 (CDCl3, 600 MHz), see Supplementary Figs. 6 for the complete HMQC NMR spectrum of compound 1; (B) TCOSY NMR spectrum of compound 1 (CDCl3, 600 MHz); (C) HMBC NMR spectrum of compound 1 (CDCl, 600 MHz); (D) Structure of compound 1. (E) Key 1H–1H TCOSY (─) and HMBC (→) correlations in compound 2. (F) Key 1H–1H TCOSY (─) and 3 HMBC (→) correlations in compound 3.
Fig. 2 in Glycoglycerolipids from the leaves of Perilla frutescens (L.) Britton (Labiatae) and their anti-inflammatory activities in lipopolysaccharide-stimulated RAW264.7 cells
Fig. 2. Positive-ion MALDI-TOF/TOF-MS/MS spectrum of MGDG and DGDG from Perilla frutescens leaves. (A) Compound 1 (MGDG); (B) Compound 2 (DGDG); and (C) Compound 3 (DGDG).
ScienceDex guides
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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.