Experiments

Searchable full-text extractions: founding hypothesis, core claims, experimental setups, key results and statistics — pulled out of each paper as structure. Search a cell line, an assay or an entity (e.g. HUH7) and find every paper that worked with it. This corpus stands on its own: most entries carry no reproduction assessment (yet).

• Reconstructing single-cell resolution from spatial transcriptomics with CellRefiner.

  PMID 41760664 · PMC13066420 · Nature communications · 2026 · 8 claims · 8 setups

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  CellRefiner is a physical/particle-based model (subcellular element method) that integrates scRNA-seq and spatial transcriptomics data to reconstruct single-cell resolution spatial data

  hypothalamic embryo hippocampus visual merfish seqfish slide-seqv2

• HRCHY-CytoCommunity identifies hierarchical tissue organization in cell-type spatial maps.

  PMID 41764165 · PMC13065825 · Nature communications · 2026 · 8 claims · 5 setups

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  HRCHY-CytoCommunity is an end-to-end graph neural network framework that jointly identifies multi-level (coarse tissue compartment and fine cellular neighborhood) tissue structures from cell-type spatial maps using differentiable graph pooling, adaptive edge pruning, and consistency/balance regularization.

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