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1,322 results for “Cells maps”
Single-cell eQTL mapping in yeast reveals a tradeoff between growth and reproduction
<p>Expression quantitative trait loci (eQTLs) provide a key bridge between noncoding DNA sequence variants and organismal traits. The effects of eQTLs can differ among tissues, cell types, and cellular states, but these differences are obscured by gene expression measurements in bulk populations. We developed a one-pot approach to map eQTLs in <em>Saccharomyces cerevisiae</em> by single-cell RNA sequencing (scRNA-seq) and applied it to over 100,000 single cells from three crosses. We used scRNA-seq data to genotype each cell, measure gene expression, and classify the cells by cell-cycle stage. We mapped thousands of local and distant eQTLs and identified interactions between eQTL effects and cell-cycle stages. We took advantage of single-cell expression information to identify hundreds of genes with allele-specific effects on expression noise. We used cell-cycle stage classification to map 20 loci that influence cell-cycle progression. One of these loci influenced the expression of genes involved in the mating response. We showed that the effects of this locus arise from a common variant (W82R) in the gene <em>GPA1</em>, which encodes a signaling protein that negatively regulates the mating pathway. The 82R allele increases mating efficiency at the cost of slower cell-cycle progression and is associated with a higher rate of outcrossing in nature. Our results provide a more granular picture of the effects of genetic variants on gene expression and downstream traits.</p>
Diffusion map objects of FACS-sorted (CD31+/CD45-) endothelial cells
<p><strong>Diffusion map objects of FACS-sorted (CD31+/CD45-) endothelial cells<br></strong></p> <p><em><span>-> part of the manuscript: Single-cell atlas of the human brain vasculature across development, adulthood and disease</span></em><span><br><em><span>https://www.nature.com/articles/s41586-024-07493-y</span></em></span></p> <p><strong> </strong></p> <p>-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------</p> <p> </p> <p><em>-i) Fetal CNS sorted endothelial cells_diffusionmap.rds: </em><br> -> this is a diffusion map object of FACS-sorted (CD31+/CD45-) endothelial cells isolated from fetal brain (Fetal CNS).<br><br><em>- ii) Adult control brain (temporal lobe) sorted endothelial cells_diffusionmap.rds: </em><br> -> this is a diffusion map object of FACS-sorted (CD31+/CD45-) endothelial cells isolated from adult/control brains (temporal lobes).<br><br><em>- iii) AVM sorted endothelial cells_diffusionmap.rds: </em><br> -> this is a diffusion map object of FACS-sorted (CD31+/CD45-) endothelial cells isolated from brain arteriovenous malformations (AVM) (a brain vascular malformation).<br><br><em>- iv) LGG sorted endothelial cells_diffusionmap.rds: </em><br> -> this is a diffusion map object of FACS-sorted (CD31+/CD45-) endothelial cells isolated from lower-grade gliomas (LGG) (a brain tumor)<br><br><em>- v) GBM sorted endothelial cells_diffusionmap.rds:</em> <br> -> this is a diffusion map object of FACS-sorted (CD31+/CD45-) endothelial cells isolated from high-grade gliomas (glioblastoma (GBM)) (a brain tumor).<br><br><em>- vi) MET sorted endothelial cells_diffusionmap.rds: </em><br> -> this is a diffusion map object of FACS-sorted (CD31+/CD45-) endothelial cells isolated from brain metastasis (MET) (a brain tumor).<br><br><em>- vii) MEN sorted endothelial cells_diffusionmap.rds: </em><br> -> this is a diffusion map object of FACS-sorted (CD31+/CD45-) endothelial cells isolated from brain meningioma (MEN) (a brain tumor).</p>
Training material for the mapping and quantification of single-cell ATAC-seq 10X Datasets
<p>The data provided here is part of the Galaxy Training Network tutorial that analyses 10x genomics single-cell ATAC-seq data from the 10x platform. </p> <p>Due to time constraints during training, the datasets were subsampled to reads that map to chrY.</p> <p>The 10x Genomics Datasets follow the <a href="https://creativecommons.org/licenses/by/4.0/">Creative Commons Attribution</a> license.</p>
Sentinel Lymph Node Mapping in Detecting Cancer That Has Spread to Lymph Nodes in Patients With Non-Small Cell Lung Cancer
ClinicalTrials.gov study NCT00089310. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Mapping the Human Colon Using Single Cell Sequencing
ClinicalTrials.gov study NCT05195502. IPD Sharing: NO. Countries: 1. Publications: 5.
Mapping the Human Appendix Using Single Cell Sequencing
ClinicalTrials.gov study NCT05209061. IPD Sharing: NO. Countries: 1. Publications: 8.
Data from: Early treatment response in non-small cell lung cancer patients using diffusion-weighted imaging and functional diffusion maps - a feasibility study
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THP-1 Monocyte invasion cell tracks through guest-host MAP over 18 hours.
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Mapping the Binding Hot Spots and Transient Binding Pockets on V-domain Immunoglobulin Suppressor of T Cell Activation (VISTA) Protein Surface
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Additional Datasets for: Integrative Mapping of Human CD8+ T Cell in Inflammation and Cancer
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Lung-MAP: Durvalumab as Second-Line Therapy in Treating Patients With Recurrent Stage IV Squamous Cell Lung Cancer and No Matching Biomarkers
ClinicalTrials.gov study NCT02766335. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Single Nuclei RNA-seq to Map Adipose Cellular Populations and Senescent Cells in Older Subjects
ClinicalTrials.gov study NCT05653258. IPD Sharing: YES. Countries: 1. Publications: 0.
Lung-MAP: AZD4547 as Second-Line Therapy in Treating FGFR Positive Patients With Recurrent Stage IV Squamous Cell Lung Cancer
ClinicalTrials.gov study NCT02965378. IPD Sharing: Not stated. Countries: 2. Publications: 0.
Rucaparib in Treating Patients With Genomic LOH High and/or Deleterious BRCA1/2 Mutation Stage IV or Recurrent Non-small Cell Lung Cancer (A Lung-MAP Treatment Trial)
ClinicalTrials.gov study NCT03845296. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Lung-MAP: Rilotumumab and Erlotinib Hydrochloride or Erlotinib Hydrochloride Alone as Second-Line Therapy in Treating Patients With Recurrent Stage IV Squamous Cell Lung Cancer and Positive Biomarker
ClinicalTrials.gov study NCT02926638. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Lung-MAP: Palbociclib as Second-Line Therapy in Treating Cell Cycle Gene Alteration Positive Patients With Recurrent Stage IV Squamous Cell Lung Cancer
ClinicalTrials.gov study NCT02785939. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Ramucirumab and Pembrolizumab Versus Standard of Care in Treating Patients With Stage IV or Recurrent Non-small Cell Lung Cancer (A Lung-MAP Non-Match Treatment Trial)
ClinicalTrials.gov study NCT03971474. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Lung-MAP: Taselisib as Therapy in Treating Patients With Stage IV Squamous Cell Lung Cancer and Positive Biomarker Matches
ClinicalTrials.gov study NCT02785913. IPD Sharing: Not stated. Countries: 2. Publications: 0.
Combination Treatment (Talazoparib Plus Avelumab) for Stage IV or Recurrent Non-Squamous Non-Small Cell Lung Cancer With STK11 Gene Mutation (A LUNG-MAP Treatment Trial)
ClinicalTrials.gov study NCT04173507. IPD Sharing: Not stated. Countries: 1. Publications: 0.
Lung-MAP: Talazoparib in Treating Patients With HRRD Positive Recurrent Stage IV Squamous Cell Lung Cancer
ClinicalTrials.gov study NCT03377556. IPD Sharing: Not stated. Countries: 2. Publications: 0.
ScienceDex guides
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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.