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14 results for “lymphocyte detection”
LYON19- Lymphocyte Detection Test Set
<p><strong>LYON19</strong></p> <p>The provided test set includes 441 ROIs saved in the .<em>png</em> files, and it is a test set of LYON grand challenge: <a href="https://lyon19.grand-challenge.org/">https://lyon19.grand-challenge.org</a></p> <p> </p> <p><strong>Data Description</strong></p> <p>The test set contains Region of Interests (ROIs) selected from whole-slide images (WSI) of immunohistochemistry (IHC) stained specimens of breast, colon and prostate. Data came from eight different medical centers in the Netherlands. All slides were stained with an antibody against CD3 or CD8. Slides were subsequently digitized with a Pannoramic 250Flash II scanner (3DHistech, Hungary), resulting in WSIs with a spatial resolution of 0.24μm/px. Selected ROIs were saved with full resolution in the .<em>png</em> files. </p> <p>Selected ROIs were representative for most different types of lymphocyte distributions that occur in slides, namely (1) area with regular lymphocyte distribution, (2) clustered cells, and (3) staining or tissue artifacts.</p> <p> </p> <p><strong>Citation:</strong></p> <p>Please reference the following paper if you use LYON19 data for a scientific publication:</p> <p>Swiderska-Chadaj, Zaneta, et al. "<em><strong>Learning to detect lymphocytes in immunohistochemistry with deep learning</strong></em>." Medical Image Analysis (2019): 101547.</p> <p>Link to the paper: <a href="https://www.sciencedirect.com/science/article/pii/S1361841519300829">https://www.sciencedirect.com/science/article/pii/S1361841519300829</a></p>
Detection of early seeding of Richter transformation in chronic lymphocytic leukemia: scRNA-seq data
<p>Richter transformation (RT) is a paradigmatic evolution of chronic lymphocytic leukemia (CLL) into a very aggressive large B cell lymphoma conferring a dismal prognosis. The mechanisms driving RT remain largely unknown. We characterized the whole genome, epigenome and transcriptome, combined with single-cell DNA/RNA-sequencing analyses and functional experiments, of 19 cases of CLL developing RT. Studying 54 longitudinal samples covering up to 19 years of disease course, we uncovered minute subclones carrying genomic, immunogenetic and transcriptomic features of RT cells already at CLL diagnosis, which were dormant for up to 19 years before transformation. We also identified new driver alterations, discovered a new mutational signature (SBS-RT), recognized an oxidative phosphorylation (OXPHOS)high–B cell receptor (BCR)low-signaling transcriptional axis in RT and showed that OXPHOS inhibition reduces the proliferation of RT cells. These findings demonstrate the early seed- ing of subclones driving advanced stages of cancer evolution and uncover potential therapeutic targets for RT.</p> <p>This repository contains the processed scRNA-seq data (expression matrices, Seurat objects, metadata) related with this publication.</p>
Pan-Tumor T-Lymphocyte Detection Dataset
<p>This is a pan-tumor immunohistochemistry dataset containing 2 mm<sup>2</sup>-sized regions of interest (ROIs) from 92 whole slide images stained for cluster of differentiation 3 (CD3, antibody clone SP7). The dataset covers four tumor indications:</p> <ul> <li>32 head and neck squamous cell carcinoma (HNSCC) samples</li> <li>20 non-small cell lung cancer (NSCLC) samples</li> <li>20 triple-negative breast cancer (TNBC) samples</li> <li>20 gastric cancer (GC) samples</li> </ul> <p>The samples were digitized at a resolution of 0.23 μm/px (40× objective lens) using the NanoZoomer 2.0-HT scanning system (Hamamatsu, Japan). All samples were prepared and digitized at Merck Healthcare KGaA.</p> <p>We provide bounding box annotations for three cell types: CD3+ immune cells, tumor cells, and other cells. For each tumor indication, five ROIs were manually annotated by three pathologists. For these ROIs, we provide all three annotations and the consensus of all raters. All other ROIs have been semi-automatically annotated using commercial image analysis software. </p>
Detection of chromothripsis-like patterns from custom array platform for chronic lymphocytic leukemia diagnosis
GEO Series GSE66923. Homo sapiens. 181 samples. Type: Genome variation profiling by array.
Long-Read Single-Cell RNA Sequencing Enables Cell Genotyping to Refine Subclone Detection in Chronic Lymphocytic Leukemia
GEO Series GSE259253. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
Detection of chromothripsis-like patterns from custom array platform for chronic lymphocytic leukemia diagnosis (qchip Hemo custom array v1)
GEO Series GSE56277. Homo sapiens. 134 samples. Type: Genome variation profiling by array.
Detection of chromothripsis-like patterns from custom array platform for chronic lymphocytic leukemia diagnosis (qchip Hemo custom array v3)
GEO Series GSE66922. Homo sapiens. 47 samples. Type: Genome variation profiling by array.
Detection and Cytotoxic T Lymphocyte Therapy of Post-Transplant Lymphoproliferative Disorder After Liver Transplant
ClinicalTrials.gov study NCT00063648. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Detection of Pathological Lymphocytes in Patients With Autoimmune Disease
ClinicalTrials.gov study NCT02813083. IPD Sharing: NO. Countries: 1. Publications: 0.
Pirtobrutinib and Venetoclax With MRD Detection for Previously Untreated Chronic Lymphocytic Leukemia
ClinicalTrials.gov study NCT05677919. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Detection of Aluminium-reactive T-lymphocytes in Patients With Vaccination Granulomas
ClinicalTrials.gov study NCT06130462. IPD Sharing: Not stated. Countries: 1. Publications: 0.
HIGH-RISK SUBTYPES OF CHRONIC LYMPHOCYTIC LEUKEMIA ARE DETECTABLE AS EARLY AS 16 YEARS BEFORE DIAGNOSIS
GEO Series GSE178208. Homo sapiens. 277 samples. Type: Other.
Detecting Tumor Specific Antigen-Reactive T cells from Tumor Infiltrating Lymphocytes via Interaction Dependent Fucosyl-biotinylation [RNA-seq]
GEO Series GSE145596. Mus musculus. 9 samples. Type: Expression profiling by high throughput sequencing.
Detecting Tumor Specific Antigen-Reactive T cells from Tumor Infiltrating Lymphocytes via Interaction Dependent Fucosyl-biotinylation [TCR-seq]
GEO Series GSE154604. Mus musculus. 12 samples. Type: Other.
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OpenNeuro
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