Table · dataset · 2026
Spatial transcriptomics reveals tumour cell-intrinsic and microenvironmental features associated with survival in high-grade serous ovarian carcinoma
Listed in figshare and Loughborough Research Repository and GRANTS Data and UP Research Data Repository — shown once because both records carry DOI 10.6084/m9.figshare.34052868.v1
<p dir="ltr">High-grade serous ovarian carcinoma (HGSOC) is the most lethal form of gynaecological cancer, with patient outcomes influenced by both tumour-intrinsic biology and the surrounding tumour microenvironment.
Description
Bulk transcriptomic approaches capture these features as a composite signal, limiting the ability to resolve their cellular and spatial origins. We therefore used <b>Xenium spatial transcriptomics to profile 122 treatment-naïve HGSOC tumours</b> using a <b>custom 480-gene panel</b> designed to characterise tumour-intrinsic expression and immune and stromal cell populations.
The study integrates spatial transcriptomic profiling, cell-type annotation, tumour pseudobulk analysis, tumour-centric spatial neighbourhood analysis, and survival modelling to investigate relationships between tumour biology, the microenvironment, and clinical outcomes.</p><p dir="ltr">This repository contains a consolidated <b>processed AnnData object</b> generated from the 10x Genomics Xenium spatial transcriptomic data used in this study.
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The deposited object includes the processed expression matrix, cell-level annotations, and spatial coordinates following preprocessing, quality control, and cell-type annotation. Spatial coordinates have been adjusted between TMA sections to position the complete TMA5 and TMA6 sections together within a common coordinate space for visualisation.</p><p dir="ltr">Representative Python and R scripts used for Xenium data processing, transcript reassignment, quality control, annotation, spatial neighbourhood analysis, and survival analyses are available at github.com/Kamran-Khan96/Xenium_HGSOC_spatial (The scripts are provided as representative analysis workflows and may require adaptation for different datasets, directory structures, or computational environments).</p>
Links
Where it is published
- DOI doi.org/10.6084/m9.figshare.34052868.v1 ↗
DOI / persistent id · from figshare com
Catalogue records · 1
- OAI-PMH record api.figshare.com/v2/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3Af… ↗
metadata API · from figshare com
Topics
- From keywords
- Astronomy & Astrophysics · Chemistry · Chemistry · Computer Science & AI · Computer Science & AI · Earth & Environmental Science · Earth & Environmental Science · Earth & Environmental Science · Earth & Environmental Science · Economics & Finance · Economics & Finance · Engineering · Engineering · Engineering · Genomics and transcriptomics · Genomics and transcriptomics · Genomics and transcriptomics · Genomics and transcriptomics · Humanities · Humanities · Humanities · Life Sciences · Life Sciences · Life Sciences · Life Sciences · Materials Science · Mathematics & Statistics · Medicine & Health · Medicine & Health · Medicine & Health · Medicine & Health · Ocean & Atmospheric Science · Psychology & Behavioral Science · Social Science · Social Science · Social Science
- Inferred from text
- Cancer 75%
Provenance · 4 source records, 42 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| figshare | oai:figshare.com:article/34052868 | 6 d ago | JSON v1 |
| Loughborough Research Repository | oai:figshare.com:article/34052868 | 5 d ago | JSON v1 |
| GRANTS Data | oai:figshare.com:article/34052868 | 5 d ago | JSON v1 |
| UP Research Data Repository | oai:figshare.com:article/34052868 | 5 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · figshare com | connector:figshare_com@1.0.0 | |
| concepts[disease].local:disease:cancer | enrichment · figshare com | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[field].anzsrc:field:310204 | mapping · grantsdata jst go jp | vocabulary-mapper@1.0.0 | keywords['Genomics and transcriptomics'] |
| concepts[field].anzsrc:field:310204 | mapping · researchdata up ac za | vocabulary-mapper@1.0.0 | keywords['Genomics and transcriptomics'] |
| concepts[field].anzsrc:field:310204 | mapping · figshare com | vocabulary-mapper@1.0.0 | keywords['Genomics and transcriptomics'] |
| concepts[field].anzsrc:field:310204 | mapping · repository lboro ac uk | vocabulary-mapper@1.0.0 | keywords['Genomics and transcriptomics'] |
| concepts[field].local:field:astronomy | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:chemistry | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:chemistry | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
| concepts[field].local:field:computer-science-ai | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
| concepts[field].local:field:computer-science-ai | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · grantsdata jst go jp | connector:grantsdata_jst_go_jp@1.0.0 | |
| concepts[field].local:field:earth-environmental | mapping · researchdata up ac za | connector:researchdata_up_ac_za@1.0.0 | |
| concepts[field].local:field:economics-finance | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
| concepts[field].local:field:economics-finance | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:engineering | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:engineering | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
| concepts[field].local:field:engineering | mapping · researchdata up ac za | connector:researchdata_up_ac_za@1.0.0 | |
| concepts[field].local:field:humanities | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:humanities | mapping · researchdata up ac za | connector:researchdata_up_ac_za@1.0.0 | |
| concepts[field].local:field:humanities | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · researchdata up ac za | connector:researchdata_up_ac_za@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · grantsdata jst go jp | connector:grantsdata_jst_go_jp@1.0.0 | |
| concepts[field].local:field:materials-science | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
| concepts[field].local:field:mathematics-statistics | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · researchdata up ac za | connector:researchdata_up_ac_za@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · grantsdata jst go jp | connector:grantsdata_jst_go_jp@1.0.0 | |
| concepts[field].local:field:ocean-atmospheric | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:psychology-behavioral | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
| concepts[field].local:field:social-science | mapping · researchdata up ac za | connector:researchdata_up_ac_za@1.0.0 | |
| concepts[field].local:field:social-science | mapping · figshare com | connector:figshare_com@1.0.0 | |
| concepts[field].local:field:social-science | mapping · repository lboro ac uk | connector:repository_lboro_ac_uk@1.0.0 | |
| description | source · figshare com | connector:figshare_com@1.0.0 | /metadata/dc/description |
| license | source · figshare com | connector:figshare_com@1.0.0 | /metadata/dc/rights |
| publication_date | source · figshare com | connector:figshare_com@1.0.0 | |
| title | source · figshare com | connector:figshare_com@1.0.0 | /metadata/dc/title |