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1,544 results for “microenvironment”
scRNA-seq reveals an immune microenvironment and JUN-mediated NK cell exhaustion in relapsed T-ALL
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Data from: Phosphorescence monitoring of hypoxic microenvironment in solid-tumors to evaluate chemotherapeutic effects using the hypoxia-sensitive iridium (III) coordination compound
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Microenvironment characteristics and molecular classification in pheochromocytoma patients
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Raw and normalized count data for "Probabilistic cell-type assignment of single-cell RNA-seq for tumor microenvironment profiling"
<p>SingleCellExperiment objects containing raw and normalized counts, as well as reduced dimension representations and cell type annotations for both the follicular lymphoma samples (sce_follicular_annotated_final.rds) and high grade serous ovarian cancer samples (sce_hgsc_annotated_final.rds) as detailed in the paper, as well as reactive lymph node data (sce_RLN_normalized.rds).</p>
Processed CODEX multiplexed imaging data of cellular microenvironment around T cell stimulating hydrogels
<p>Our research used CODEX (Co-Detection by Indexing) multiplexed imaging to gain insights into the cellular microenvironment surrounding T cell stimulating hydrogels. These hydrogels were engineered with signals that could locally expand antigen-specific T cells for use in tumor immunotherapy. CODEX imaging involves an iterative process of annealing and stripping fluorophore-labeled oligonucleotide barcodes, complementing the barcodes attached to over 40 antibodies used for tissue staining. Subsequently, images underwent standard CODEX image processing (tile stitching, drift compensation, cycle concatenation, background subtraction, deconvolution, and determination of best focal plane), single cell segmentation, and column marker z-normalization by tissue.</p> <p>Our datasets comprise individual cells as rows, each characterized by 40+ antibody fluorescence values quantified from various markers evaluated for each study. These markers correspond to the antibodies targeting specific proteins within the tissue, quantified at the single-cell level. The values represent per-cell/area-averaged fluorescent intensities, z-normalized along each column. Each cell is mapped with its cell type, defined by x and y coordinates representing pixel locations in the original image. </p> <p>We then used this data to investigate how different proportions of the cell types change over time in response to the stimulating hydrogel injection with antigen-specific T cells. These data could be used to understand the cellular interactions, composition, and structure of T cell stimulating biomaterials for antigen-specific immunotherapy and with adoptive T cell transfer. These datasets offer valuable insights for researchers interested in engineering T cell stimulating microenvironments, immune responses, and therapeutic interventions such as T cell therapies.</p> <p>We investigate the dynamic interplay between immune responses, antigen-specific T cell interactions, and hydrogel environment in a murine melanoma model. We injected antigen-specific T cells with microparticle T cell stimulating hydrogels into mice subcutaneously. Injection sites were take out at different time points day=0 (just after injection), day=3, and day=9 (n=3-6 per time point). Our 51-plex CODEX antibody panel characterizes immune cell types, T cell phenotypes, and stromal cell types, resulting in a rich dataset of 241,685 cells across 51 marker channels.</p>
Characterization of the tumor-immune microenvironment in hepatocellular carcinoma patients undergoing immune checkpoint inhibitor therapy by highly multiplexed imaging mass cytometry
<p>Imaging mass cytometry data of 42 HCC patients that received immune checkpoint inhibtor therapy after tumor biopsy or resection. </p> <ul> <li>ICI_img_normalized: Preprocessed and normalized multistack .tiff images. Each stack represents one channel. Channel annotations are stored in the ICICohort_panel.csv file.</li> <li>ICI_cellmasks: Masks identifying individual cells on the images.</li> <li>ICI_stromamasks: Masks identifying stromal and parenchymal regions on the image.</li> <li>ICICohort_panel.csv: table containing channel information (metal tag and marker).</li> </ul> <p>Patient etadata may be found in the supplementary table 3 of DOI <a href="https://doi.org/10.1136/gutjnl-2024-332837" target="_blank" rel="noopener noreferrer">10.1136/gutjnl-2024-332837</a>.</p>
Dataset related to article "Deciphering the Labyrinthine System of the Immune Microenvironment in Recurrent Glioblastoma: Recent Original Advances and Lessons from Clinical Immunotherapeutic Approaches"
<p>raw data supporting study mentioned at title</p>
Dataset related to article "Development of a 3D ex vivo model of brain-leukemia interaction to study the role of Activin A in the Central Nervous System microenvironment"
<p>Excel file related to the article</p>
Increased spatial coupling of integrin and collagen IV in the immunoresistant clear-cell renal-cell carcinoma tumor microenvironment - Validation mIF
<p>mIF object from <em>spatialTIME</em> R package, calculating univariate Ripley's K on multiplex immunofluorescence images stained with FOXP3, CD8, CD68, ITGAV, COL4, VIM, SMA, and PCK. Data was processed with InForm and HALO. </p> <p>Clear cell renal cell carcinoma and papillary renal cell carcinoma were profiled before and after exposure to immunotherapy, with and without sarcomatoid features in clear cell tumors. Each tumor had a field of view in the stromal compartment and field of view in the tumor compartment.</p> <p>For appropriate clinical information associated with this study, please contact Dr. Brandon Manley.</p>
Tumor microenvironment drawing
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Tumor microenvironment drawing
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Spatial profile of tumor microenvironment in PD-L1-negative and PD-L1-positive triple negative breast cancer
<p><strong>Supplementary Materials</strong></p>
Precision Therapy Based on Immune Microenvironment by Transcriptome Sequencing of Osteosarcoma, a Prospective, Multi-cohort Exploratory Clinical Study
ClinicalTrials.gov study NCT06776198. IPD Sharing: NO. Countries: 0. Publications: 1.
Artificial Intelligence-based Tumor Microenvironment Analysis for Prognosis Prediction in Gallbladder Cancer
ClinicalTrials.gov study NCT07092397. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
A Study of Granix to Disrupt the Bone Marrow Microenvironment in Patients With Multiple Myeloma Undergoing Autologous Transplantation
ClinicalTrials.gov study NCT02112045. IPD Sharing: NO. Countries: 1. Publications: 0.
Virus-associated Tumour Microenvironment
ClinicalTrials.gov study NCT06471296. IPD Sharing: YES. Countries: 0. Publications: 0.
A Pilot Study of Perioperative Nivolumab and Paricalcitol to Target the Microenvironment in Resectable Pancreatic Cancer
ClinicalTrials.gov study NCT03519308. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
Tumor Microenvironment
ClinicalTrials.gov study NCT05982574. IPD Sharing: Not stated. Countries: 0. Publications: 3.
Alterations in the Vaginal Microenvironment Using a Non-pharmacological Intervention
ClinicalTrials.gov study NCT03739983. IPD Sharing: NO. Countries: 1. Publications: 0.
Targeting Microenvironment and Cellular Immunity in Sarcomas Weekly Trabectedin Combined With Metronomic Cyclophosphamide
ClinicalTrials.gov study NCT02805725. IPD Sharing: UNDECIDED. Countries: 1. Publications: 0.
ScienceDex guides
Understand access before you commit
These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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.