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2,598 results for “Single cell sequencing”
Fast Intratumor Heterogeneity Inference from Single-Cell Sequencing Data (simulated data - Extended Data Figures)
<p>This data repository contains simulated data used for benchmarking HUNTRESS against the existing alternative tools. Results of the benchmarking are shown in Extended Data Figures 1-10 of the paper "Fast Intratumor Heterogeneity Inference from Single-Cell Sequencing Data" (to appear in Nature Computational Science). </p>
An anti-influenza combined therapy assessed by single cell RNA-sequencing
<p>Figures source data for<strong> </strong>"<strong>An anti-influenza combined therapy assessed by single cell RNA-sequencing</strong>"</p> <p> </p>
The single cell RNA sequencing of Bullous Pemphigoid
<p>The Sparse count tables in 10XGenomics format (barcodes.tsv.gz features.tsv.gz matrix.mtx.gz) of 33 samples as detailed in Nat Commun 15, 5949 (2024). </p> <p> Including single-cell RNA sequencing (scRNA-seq) from five lesions of Bullous Pemphigoid (BP) patients and eight normal skin of healthy donors, eight PBMC of BP patients and eight PBMC of healthy donors, four blister of BP patients.</p> <p>If you utilize this dataset in your research, kindly cite our article: Liu, T., Wang, Z., Xue, X. et al. Single-cell transcriptomics analysis of bullous pemphigoid unveils immune-stromal crosstalk in type 2 inflammatory disease. Nat Commun 15, 5949 (2024). https://doi.org/10.1038/s41467-024-50283-3.</p>
Plasmid sequences for the paper "A FRET based biosensor for measuring Gα13 activation in single cells"
<p>Plasmid sequences for the paper "A FRET based biosensor for measuring Gα13 activation in single cells"</p>
Deep Learning Based Models for Preimplantation Mouse and Human Embryos Based on Single Cell RNA Sequencing
Open the record for dataset details and reuse information.
Single-cell RNA sequencing reveals immunosuppressive pathways associated with metastatic breast cancer
Open the record for dataset details and reuse information.
Spatial reconstruction of the early hepatic transcriptomic landscape after an acetaminophen overdose using single-cell RNA sequencing
<p>We leveraged single-cell RNA sequencing to understand the early molecular events that define the hepatocyte response to acetaminophen exposure at a subpopulation level. We spatially assigned hepatocytes along the portol-central vein axis by using established landmark genes. By spatially assigning the hepatocytes were were able to account for innate differences in gene expression that existed along this gradient. The excel files herein provide the full list of differentially expressed genes between key subpopulations of interest. Additionally, we classified genes as either pericentral zonated, periportal zonated, or non-zonated, the full list of genes and their spatial assignments are included in the appropriate excel file. </p>
Benchmarking the Autoencoder Design for Imputing Single-Cell RNA Sequencing Data
<p>This repository contains the real and synthetic datasets used in the paper "Benchmarking the Autoencoder Design for Imputing Single-Cell RNA Sequencing Data". The zip file includes three folders:</p> <p>1. overall imputation accuracy: the 12 real scRNA-seq datasets used in the evaluation of overall imputation accuracy.</p> <p>2. cell clustering: the 20 real scRNA-seq datasets with cell type labels used in the evaluation of cell clustering.</p> <p>3. DE gene: the 20 scRNA-seq syntehtic datasets with ground-truth DE genes used in the evaluation of DE gene analysis. These datasets are simulated by simulator scDesign and 20 real datasets. </p> <p> </p>
Single-cell RNA sequencing of Sox17-expressing lineages reveals distinct gene regulatory networks and dynamic developmental trajectories
<p>Two seurat objects contains single-cell RNA sequencing data that captures <em>Sox17</em>-expressing lineages during embryogenesis.</p> <p>sox17_integrated_Figure2B.rds :</p> <p>This is a seurat object that contains single-cell RNA sequencing data from integration of GFP+ cells produced from <em>Sox17<sup>GFPCre</sup></em> allele marking cells that currently express <em>Sox17</em> or short-term progeny of <em>Sox17­-</em>expressing progenitors and TdTomato+ cells produced from <em>R26<sup>LSL.TdTomato</sup></em> reporter allele in the presence of <em>Sox17<sup>GFPCre</sup></em> marking long-term progeny of <em>Sox17</em>-expressing progenitors. Inferred cell types in this seurat object reflects Figure 2B in the article.</p> <p>sox17_Prox1_endoderm_Figure5A.rds :</p> <p>This is a seurat object that contain single-cell RNA sequencing data from integration of <em>Sox17</em>- and <em>Prox1</em>-expressing endoderm dataset. Prox-1 expressing endoderm data is from the Willnow et al. <em>Nature</em>(2021). Inferred cell types in this seurat object reflects Figure 5A in the article.</p>
A molecular cell atlas of the human lung from single cell RNA sequencing
<p>https://cellxgene.cziscience.com/collections/5d445965-6f1a-4b68-ba3a-b8f765155d3a</p> <p>https://www.nature.com/articles/s41586-020-2922-4</p>
Single-nucleus RNA-sequencing reveals oligodendrocytes and their progenitors as vulnerable cell types in prefrontal cortex and anterior cingulate of brains with Parkinson's disease
<p>Several prior studies have proposed the involvement of various brain regions and cell types in Parkinson's disease (PD) pathology. Here, we performed snRNA-seq on the prefrontal cortex and anterior cingulate regions from post-mortem control and PD brain tissue. We found a dramatic association of oligodendrocytes and oligodendrocyte precursor cells with PD-linked risk loci and reported several dysregulated genes and pathways, including regulation of tau-protein kinase activity, regulation of inclusion body assembly and protein processing involved in protein targeting to mitochondria.</p>
The contribution of multiplexing single cell RNA sequencing in acute myeloid leukemia
<p>Figures and supplimentary data of article : " The contribution of multiplexing single cell RNA sequencing in acute myeloid leukemia"</p>
Processed Single-cell RNA-sequencing data from adult recurrent respiratory papillomatosis
<p>.rds file (read in R) that contains processed single-cell RNA-sequencing data from 13 untreated adult recurrent respiratory papillomatosis clinical samples. The associated raw RNA sequencing data is available through The Database of Genotypes and Phenotypes (dbGaP), accession number phs003349.v1.p1. Sequences were also alsigned to a, HPV reference to allow quantification of HPV 6 or 11 gene expression. </p>
"Immunoregulation in Atherosclerosis: A Single-Cell RNA Sequencing Study"
ClinicalTrials.gov study NCT06860295. IPD Sharing: YES. Countries: 1. Publications: 15.
Mapping the Human Colon Using Single Cell Sequencing
ClinicalTrials.gov study NCT05195502. IPD Sharing: NO. Countries: 1. Publications: 5.
Single-cell Sequencing of BLF to Guide the Treatment of Radiation Pneumonitis or Immune Checkpoint Inhibitor Pneumonitis
ClinicalTrials.gov study NCT05455034. IPD Sharing: NO. Countries: 1. Publications: 3.
Mapping the Human Appendix Using Single Cell Sequencing
ClinicalTrials.gov study NCT05209061. IPD Sharing: NO. Countries: 1. Publications: 8.
Single-cell Sequencing Analysis of Resectable/Borderline Resectable Pancreatic Cancer Patients
ClinicalTrials.gov study NCT06310902. IPD Sharing: NO. Countries: 1. Publications: 3.
Single-cell Sequencing and Establishment of Models in Neuroendocrine Neoplasm
ClinicalTrials.gov study NCT04927611. IPD Sharing: NO. Countries: 1. Publications: 21.
Discovering Early Biomarkers in Circulating Endothelial Cells for Diabetes Complications by Single Cell RNA Sequencing
ClinicalTrials.gov study NCT05169502. IPD Sharing: YES. Countries: 1. Publications: 4.
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.