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997 results for “NK cells”
Supporting transcriptomic data and code for: "Rapid and dose-dependent Natural Killer (NK) cell modulation and cytokine correlations after human rVSV-ZEBOV Ebolavirus vaccination"
<p>The counts_NK.csv file contains gene expression data (counts) for genes in the Ion Ampliseq human Gene expression kit panel. Data were obtained from whole blood RNA. Subjects were vaccinated with a high dose of the rVSV-ZEBOV vaccine against Ebola virus disease in the Geneva clinical trial.</p> <p>The Descriptive_Table_NK_2.csv contains descriptive data of the subjects for differential expression analysis.</p> <p>The NK_analysis_code.R file contains the code used for analysis.</p>
Escape from NK cell tumor surveillance by NGFR-induced lipid remodeling in melanoma
<p>Metabolomics Data used in the publication</p> <p>1) raw files obtained by the FGCZ (<a href="https://fgcz.ch/">Functional Genomics Center Zurich</a>):</p> <p>QCpools (technical replicate of all sample pooled: p2947_o5292_SOP3_DDA5_pos_QCpool_cells</p> <p>Sample of M010817 CMVTOEV cells not induced: p2947_o5292_SOP3_DDA5_pos_EV_cells_noninduced_sample</p> <p>Sample of M010817 CMVTOEV cells induced: p2947_o5292_SOP3_DDA5_pos_EV_cells_induced_sample</p> <p>Sample of M010817 CMVTONGFR cells not induced: p2947_o5292_SOP3_DDA5_pos_p75_cells_noninduced_sample</p> <p>Sample of M010817 CMVTONGFR cells induced: p2947_o5292_SOP3_DDA5_pos_p75_cells_induced_sample</p> <p>2) method description LC-MS</p> <p>LC-MS-based lipidomic analysis was performed with M010817 CMVTOEV and CMVTONGFR cells pretreated with 1 μg/ml doxycycline for 24 h. Cells were detached with PBS 2 mM EDTA, washed and resuspended in 1-butanol/methanol (1:1). Cells were vortexed for 15 sec and subsequently sonicated on ice with a pulse of 3x 10 sec and 1x 30 sec at an amplitude of 15% using a SONOPULS HD 2070 Ultrasonic Homogenizer (Bandelin). Cell extracts were centrifuged at 16’000 g, 20°C for 10 min to remove macromolecules and subsequently diluted (1:3) with water/methanol (1:2) solution. The dilution was vortexed and centrifuged (16,000 x g, 20 °C, 10 min). 100 μl of the supernatant was transferred to a glass vial with narrowed bottom (Total Recovery Vials, Waters) for LC-MS injection. <br> Lipids were separated on a nanoAcquity UPLC (Waters) equipped with a HSS T3 capillary column (150 μm x30mm, 1.8 μm particle size, Waters), applying a gradient of 5 mM ammonium acetate in water/acetonitrile 95:5 (A) and 5 mM ammonium acetate in isopropanol/acetonitrile 90:10 (B) from 5% B to 100% B over 10 min. The following 5 min conditions were kept at 100% B, followed by 5 min reequilibration to 5% B. The injection volume was 1 μL. The flow rate was constant at 2.5 μl/min. The UPLC was coupled to QExactive mass spectrometer (Thermo) by a nanoESI source. MS data was acquired using positive polarization and data-dependent acquisition (DDA). Full scan MS spectra were acquired in profile mode from 80-1200 m/z with an automatic gain control target of 1e6, an Orbitrap resolution of 70`000, and a maximum injection time of 200 ms. The 5 most intense charged (z = +1 or +2) precursor ions from each full scan were selected for collision induced dissociation fragmentation. Precursor was accumulated with an isolation window of 0.4 Da, an automatic gain control value of 5e4, a resolution of 17`500, a maximum injection time of 50 ms and fragmented with a normalized collision energy of 20, 30 and 40 (arbitrary unit). Generated fragment ions were scanned in the linear trap. Minimal signal intensity for MS2 selection was set to 500.</p> <p> </p> <p>3) csv result files were generated by the FGCZ (<a href="https://fgcz.ch/">Functional Genomics Center Zurich</a>)</p> <p>adducts found: adducts_p2947_o5292_new_10K_20210910</p> <p>identifications found: identifications_p2947_o5292_new_10K_20210910</p> <p>abundances of features: measurements_p2947_o5292_new_10K_20210910</p> <p>Metaboanalyst file statistics: Metabo_p2947_o5292_10k_cells_CVcleaned_20210916</p> <p>Metaboanalyst file enrichment: Metabo_Enrichment_p2947_o5292_10k_cells_20210910 _p75</p> <p>4) method description data analysis</p> <p>Data sets were evaluated with Progenesis QI software (Nonlinear Dynamics), which aligns the ion intensity maps based on a reference data set, followed by a peak picking on an aggregated ion intensity map. Detected ions were identified based on accurate mass, detected adduct patterns and isotope patterns by comparing with entries in the LipidMaps Data Base (LM) and KEGG database. Considered adducts were M+H, M+NH4, 2M+H M+H-H2O. A mass accuracy tolerance of 5 ppm was set for the searches. Fragmentation patterns were considered for 600 the identifications of metabolites. Putative identifications were further ranked based on Mass error (observed mass – exact mass), isotope similarity (observed versus theoretical).</p> <p> </p>
Multivariate analysis of FcR-mediated NK cell functions identifies unique clustering among humans and rhesus macaques - dataset
<p>Dataset from Tuyishime M, Spreng RL, et al. Multivariate analysis of FcR-mediated NK cell functions identifies unique clustering among humans and rhesus macaques. Frontiers in Immunology 2023 doi: 10.3389/fimmu.2023.1260377</p>
Hepatitis D infection induces IFN-β-mediated NK cell activation and TRAIL-dependent cytotoxicity
<p>The dataset contains bulk RNA-seq read count matrices of NK cells from healthy donors after 48 h of co-culture with hepatitis D virus infected and non-infected HepG2-hNTCP cells. The samples are described in the table RNA-seq_samples.xls that is included with the count matrices. Further details are given in the publication associated with this dataset (Groth et al., <i>Front Immunol</i>, 2023, https://doi.org/10.3389/fimmu.2023.1287367).</p>
Dataset related to article "NK cell recruitment in salivary glands provides early viral control but is dispensable for tertiary lymphoid structure formation."
<p>Salivary glands (SGs) represent a permissive site for several sialotropic viruses whose persistence is linked to the development of autoimmunity. Natural Killer (NK) cells play a key role in viral clearance but their involvement in viral infection control and in tertiary lymphoid structures (TLS) development within SGs is unknown. By using an inducible model of TLS in the SGs of wild-type C57BL/6 mice, induced by the local delivery of a replication-defective adenovirus (AdV), we demonstrated that circulating NK cells are rapidly recruited to SGs and highly enrich the early inflammatory infiltrate prior to TLS development. NK cells migrating to SGs in response to AdV infection up-regulate NKp46, undergo proliferation, acquire cytotoxic potential, produce Granzyme-B and IFN-γ, and reduce viral load in the acute phase of the infection. Nonetheless, the selective depletion of both circulating and infiltrating NK cells in AdV-infected mice neither affect the development and frequency of TLS nor the onset of autoimmunity. These data demonstrate that, upon local viral delivery of AdV, peripheral NK cells homing to SGs can exert an early control of the viral infection but are dispensable for the formation of TLS and breach of immunologic tolerance.</p> <p> </p> <p>This research used pzf and ets file form extensions, we attach pdfs information about</p>
Single-cell datasets for NK cell
<p>The NK cell mass cytometry dataset total collects 20 patients with 29 features. The attribute is divided into stimulated and unstimulated data. By dealing with data pre-processing in NK cell dataset, the raw data in each feature for every patient were transformed using an arcsinh normalization, which is f(x) = arcsinh(x/5).</p>
Antigen-specific memory NK cell responses against HIV and influenza utilize the NKG2/HLA-E axis
<p>For over a decade, multiple studies have disputed the notion of natural killer (NK) cells as purely innate lymphocytes by demonstrating that they are capable of putative antigen-specific immunological memory against multiple infectious agents including two critical global health priorities – human immunodeficiency virus (HIV) and influenza. However, the mechanisms underlying antigen specificity remain unknown. Herein, we demonstrate that antigen-specific human NK cell memory develops upon exposure to both HIV and influenza, unified by a conserved and epitope-specific targetable mechanism largely dependent on the activating CD94/NKG2C receptor and its ligand HLA-E, and confirm these findings by three rigorous assays. We validated the permanent acquisition of antigen-specificity by individual memory NK cells by single-cell cloning. We identified biomarkers of antigen-specific NK cell memory through complex immunophenotyping by 30-parameter flow cytometry showing elevated expression of KLRG1, a4b7, and NKG2C. Finally, we show individual HLA-E-restricted peptides that may constitute the dominant NK cell response in HIV-1- and influenza-infected persons in vivo. Our findings clarify the mechanisms behind antigen-specific memory NK cell responses, and suggest they could be targeted for future vaccines, cure strategies, or other therapeutic interventions.</p>
Cytokine-induced Memory-like NK Cells in Patients With Acute Myeloid Leukemia (AML) or Myelodysplastic Syndrome (MDS)
ClinicalTrials.gov study NCT01898793. IPD Sharing: NO. Countries: 1. Publications: 4.
Study of BGB-A317 in Participants With Relapsed or Refractory Mature T- and NK-cell Neoplasms
ClinicalTrials.gov study NCT03493451. IPD Sharing: YES. Countries: 5. Publications: 1.
Penostatin, Rituximab and Ontak and Allogeneic Natural Killer (NK) Cells for Refractory Lymphoid Malignancies
ClinicalTrials.gov study NCT01181258. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Campath-1H and EPOCH to Treat Non-Hodgkin's T- and NK-Cell Lymphomas
ClinicalTrials.gov study NCT00069238. IPD Sharing: NO. Countries: 1. Publications: 4.
A Phase 1 Trial of CIML NK Cell Infusion for Myeloid Disease Relapse After Hematopoietic Cell Transplantation
ClinicalTrials.gov study NCT04024761. IPD Sharing: YES. Countries: 1. Publications: 1.
Phase 1 Trial of Siplizumab and Dose-Adjusted EPOCH-Rituximab in T- and NK-Cell Lymphomas
ClinicalTrials.gov study NCT01445535. IPD Sharing: NO. Countries: 1. Publications: 4.
Umbilical & Cord Blood (CB) Derived CAR-Engineered NK Cells for B Lymphoid Malignancies
ClinicalTrials.gov study NCT03056339. IPD Sharing: Not stated. Countries: 1. Publications: 2.
Clofarabine Plus Cytarabine Versus Conventional Induction Therapy And A Study Of NK Cell Transplantation In Newly Diagnosed Acute Myeloid Leukemia
ClinicalTrials.gov study NCT00703820. IPD Sharing: Not stated. Countries: 2. Publications: 2.
A Phase I Study of NK Cell Infusion Following Allogeneic Peripheral Blood Stem Cell Transplantation From Related or Matched Unrelated Donors in Pediatric Patients With Solid Tumors and Leukemias
ClinicalTrials.gov study NCT01287104. IPD Sharing: NO. Countries: 1. Publications: 1.
Study of MK-3475 Alone or in Combination With Copanlisib in Relapsed or Refractory NK and T-cell Non-Hodgkin Lymphoma
ClinicalTrials.gov study NCT02535247. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Natural Killer (NK) Cell Transplantation for AML
ClinicalTrials.gov study NCT00187096. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Cytokine Induced Memory-like NK Cell Adoptive Therapy for Relapsed AML After Allogeneic Hematopoietic Cell Transplant
ClinicalTrials.gov study NCT03068819. IPD Sharing: NO. Countries: 1. Publications: 1.
Haploidentical Donor Hematopoietic Progenitor Cell and NK Cell Transplantation for Hematologic Malignancy
ClinicalTrials.gov study NCT01807611. IPD Sharing: Not stated. Countries: 1. Publications: 1.
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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.