Dataset supporting the University of Southampton Doctoral Thesis "Investigating fibroblast heterogeneity in head and neck squamous cell carcinoma"
Dataset supporting the University of Southampton Doctoral Thesis "Investigating fibroblast heterogeneity in head and neck squamous cell carcinoma"
This dataset contains scRNA-Seq (10x 3' v3) and spatial transcriptomics (10x Visium V2 Cytassist) data for 10 patients with oropharyngeal squamous cell carcinoma. The scRNA-Seq .RDS file contains an integrated seurat object containing 82,844 cells with corresponding metadata within the object. Spatial transcriptomics data was read into Seurat using Load10X_Spatial(). The visium data is uploaded both as SpaceRanger output files for each sample and as a Seurat object with deconvoluted spot-level cell type abundance metadata.
scRNAseq, HNSCC, Fibroblasts, bioinformatics
University of Southampton
Jenkins, Benjamin Henry
d4bff137-9406-401c-9b30-8df72de88176
Jenkins, Benjamin Henry
d4bff137-9406-401c-9b30-8df72de88176
Jenkins, Benjamin Henry
(2025)
Dataset supporting the University of Southampton Doctoral Thesis "Investigating fibroblast heterogeneity in head and neck squamous cell carcinoma".
University of Southampton
doi:10.5258/SOTON/D3247
[Dataset]
Abstract
This dataset contains scRNA-Seq (10x 3' v3) and spatial transcriptomics (10x Visium V2 Cytassist) data for 10 patients with oropharyngeal squamous cell carcinoma. The scRNA-Seq .RDS file contains an integrated seurat object containing 82,844 cells with corresponding metadata within the object. Spatial transcriptomics data was read into Seurat using Load10X_Spatial(). The visium data is uploaded both as SpaceRanger output files for each sample and as a Seurat object with deconvoluted spot-level cell type abundance metadata.
Text
Thesis-readme.txt
- Other
Other
HNSCC_scRNASeq_EPGdataset.RDS
- Dataset
Other
HNSCC_VisiumSpatialGeneExpressionDataset.RDS
- Dataset
Text
metadata_final_UoSdata.csv
- Dataset
Archive
HNSCC_Visium_data.tar
- Dataset
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More information
Published date: 2025
Keywords:
scRNAseq, HNSCC, Fibroblasts, bioinformatics
Identifiers
Local EPrints ID: 501214
URI: http://eprints.soton.ac.uk/id/eprint/501214
PURE UUID: dc567993-1a40-419e-94df-927c36429a1d
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Date deposited: 27 May 2025 17:42
Last modified: 28 May 2025 02:06
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Contributors
Creator:
Benjamin Henry Jenkins
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