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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"
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]

Record type: 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.

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Thesis-readme.txt - Other
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HNSCC_scRNASeq_EPGdataset.RDS - Dataset
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HNSCC_VisiumSpatialGeneExpressionDataset.RDS - Dataset
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metadata_final_UoSdata.csv - Dataset
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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
DOI: doi:10.5258/SOTON/D3247
PURE UUID: dc567993-1a40-419e-94df-927c36429a1d
ORCID for Benjamin Henry Jenkins: ORCID iD orcid.org/0000-0002-7588-0044

Catalogue record

Date deposited: 27 May 2025 17:42
Last modified: 28 May 2025 02:06

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Contributors

Creator: Benjamin Henry Jenkins ORCID iD

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