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Visium CytAssist Spatial Gene Expression analysis for FFPE glioblastoma samples

This study used spatial transcriptomics to investigate gene expression patterns in FFPE glioblastoma tumor samples from four patients.

Type: Transcriptome Analysis
Archiver: European Genome-phenome Archive (EGA)

1 Dataset 1 Publication

Click on a Dataset ID in the table below to learn more, and to find out who to contact about access to these data

Dataset ID	Description	Technology	Samples
EGAD50000001767	The glioblastoma spatial transcriptomics dataset was generated from 4 FFPE fixed adult glioblastoma samples, using the 10x Genomics Visium platform, producing raw FASTQ files, spatial feature matrices (.h5, .mtx, .tsv), and paired histology images (.tif). Spot-level transcript counts were aligned to tissue architecture and processed in Seurat, with results stored as .rds objects. Data visualization was performed using SpatialFeaturePlot, and quantitative analyses were supported by custom Matlab scripts. The dataset provides both raw and processed files, offering reproducible spatially resolved transcriptomic profiles of glioblastoma tissue sections	Illumina NovaSeq 6000	4

Publications	Citations
Pharmacological targeting and characterization of Voltage-Gated Sodium Channels (VGSCs) expressed in the high-grade glioma microenvironment. Fletcher EV, Shard C, Boyle Y, Milligan CJ, Cross RSN, Jones AC, Francis A, Dewdney B, Barker M, Rezaeiravesh S, Ng ZY, Yeow Y, Kuznetsova I, Jones ME, Ormsby RJ, Poonnoose SI, Patil A, Valvi S, Jenkins MR, Forrest ARR, Petrou S, Gomez GA, Johns TG. BMC Cancer 26: 2025 39	0

Publications

Citations

Pharmacological targeting and characterization of Voltage-Gated Sodium Channels (VGSCs) expressed in the high-grade glioma microenvironment.
Fletcher EV, Shard C, Boyle Y, Milligan CJ, Cross RSN, Jones AC, Francis A, Dewdney B, Barker M, Rezaeiravesh S, Ng ZY, Yeow Y, Kuznetsova I, Jones ME, Ormsby RJ, Poonnoose SI, Patil A, Valvi S, Jenkins MR, Forrest ARR, Petrou S, Gomez GA, Johns TG. BMC Cancer 26: 2025 39