Data · dataset · 2026
<p>Summary of the datasets utilized here.</p>
Listed in NCL Data
<div><p>A central challenge in downstream single-cell RNA sequencing (scRNA-seq) analysis is the high-dimensional, small-sample (HDSS) regime, often compounded by class imbalance from rare cell types.
Description
These factors hinder robust feature (gene) selection and cell clustering and limit the realism of samples generated by existing simulators. We introduce <i>GARAGE</i>, a <b>G</b>raph-<b>A</b>ttentive <b>RA</b>re-cell aware single-cell data <b>GE</b>neration that augments the generator’s input with a small, attention-weighted <i>‘leakage’</i> of real cells in addition to prior noise.
Specifically, we build a <i>k</i>-nearest-neighbour cell graph and use a graph attention network (GAT) to prioritize nodes that likely represent under-sampled (rare) subpopulations; these high-attention cell embeddings are injected into the generator input to steer synthesis toward biologically plausible regions of the data manifold while respecting cell-type proportions. This attention-guided leakage accelerates training, reduces mode dropping, and yields realistic synthetic cells that preserve rare-cell structure.
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Across real scRNA-seq benchmarks, GARAGE improves downstream feature selection and clustering compared with state-of-the-art baselines. In summary, GARAGE directly addresses HDSS and rarity in scRNA-seq by coupling graph attention with adversarial generation to produce high-fidelity synthetic cells that enhance downstream analyses. The corresponding software is available at: <a href="github.com/RitwikGanguly/GARAGE" target="_blank">github.com/RitwikGanguly/GARAGE</a>.</p></div>
Links
Where it is published
- DOI doi.org/10.1371/journal.pcbi.1014601.t001 ↗
DOI / persistent id · from data ncl ac uk
Catalogue records · 1
- OAI-PMH record api.figshare.com/v2/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=oai%3Af… ↗
metadata API · from data ncl ac uk
Topics
- From keywords
- Biochemistry and cell biology · Cancer · Earth & Environmental Science · Genetics · Immunology · Life Sciences · Medicine & Health
- Inferred from text
- RNA sequencing 75% · Sequencing 75% · Single-cell RNA sequencing 75%
Provenance · 1 source records, 15 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCL Data | oai:figshare.com:article/34073722 | 28 h ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · data ncl ac uk | connector:data_ncl_ac_uk@1.0.0 | |
| concepts[disease].local:disease:cancer | mapping · data ncl ac uk | vocabulary-mapper@1.0.0 | keywords['Cancer'] |
| concepts[field].anzsrc:group:3101 | mapping · data ncl ac uk | vocabulary-mapper@1.0.0 | keywords['Cell Biology'] |
| concepts[field].anzsrc:group:3105 | mapping · data ncl ac uk | vocabulary-mapper@1.0.0 | keywords['Genetics'] |
| concepts[field].anzsrc:group:3204 | mapping · data ncl ac uk | vocabulary-mapper@1.0.0 | keywords['Immunology'] |
| concepts[field].local:field:earth-environmental | mapping · data ncl ac uk | connector:data_ncl_ac_uk@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · data ncl ac uk | connector:data_ncl_ac_uk@1.0.0 | |
| concepts[field].local:field:medicine-health | mapping · data ncl ac uk | connector:data_ncl_ac_uk@1.0.0 | |
| concepts[modality].local:modality:rna-seq | enrichment · data ncl ac uk | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[modality].local:modality:sequencing | enrichment · data ncl ac uk | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[modality].local:modality:single-cell-rna-seq | enrichment · data ncl ac uk | keyword-concept-rules@1.0.0 | title+description (75%) |
| description | source · data ncl ac uk | connector:data_ncl_ac_uk@1.0.0 | /metadata/dc/description |
| license | source · data ncl ac uk | connector:data_ncl_ac_uk@1.0.0 | /metadata/dc/rights |
| publication_date | source · data ncl ac uk | connector:data_ncl_ac_uk@1.0.0 | |
| title | source · data ncl ac uk | connector:data_ncl_ac_uk@1.0.0 | /metadata/dc/title |