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).

• DANST enables cell-type deconvolution in spatial transcriptomics using deep domain adversarial neural networks.

  PMID 41663685 · PMC12996496 · Communications biology · 2026 · 7 claims · 6 setups

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  DANST, a deconvolution framework using deep domain adversarial neural networks, achieves superior cell-type deconvolution accuracy compared with existing methods on human and mouse benchmark datasets

  heart cortex visual brain spatial cell-type

• Dynamic transcriptomic remodeling in grafted human neural progenitor cells uncovers mechanisms for vision preservation in a rat model of retinitis pigmentosa.

  PMID 41792118 · PMC12966429 · Nature communications · 2026 · 8 claims · 7 setups

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  Grafted hNPCs primarily differentiate into an astroglial phenotype and mature over time in the degenerative retinal environment

  grafted rcs hnpcs single-cell electroretinography immunofluorescence

• 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

• S3RL: Enhancing Spatial Single-Cell Transcriptomics With Separable Representation Learning.

  PMID 41556263 · PMC13042551 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 8 setups

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  S3RL is a separable representation learning framework that denoises sparse spatial transcriptomic data and enhances biologically relevant signals by integrating gene expression, spatial coordinates, and histological image features.

  dorsolateral dlpfc nanostring spatial cell-type multi-platform

• Under the Shadow: Old-biased Genes Are Subject to Weak Purifying Selection at Both the Tissue- and Cell Type-Specific Levels.

  PMID 41092135 · PMC12569596 · Genome biology and evolution · 2025 · 7 claims · 6 setups

  Has reproduction · 93

  ADICT (age-related decrease in transcriptome conservation) is commonly found in ageing tissues of nonmammalian species, including chicken brain, killifish liver and skin, and fruit fly brain

  drosophila nothobranchius gallus heterocephalus bulk single-cell

• Cis-regulatory evolution reveals sensory trade-offs as a genetic basis for temporal niche evolution in tapirs.

  PMID 41779860 · PMC12959415 · Science advances · 2026 · 8 claims · 8 setups

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  Tapirs reverted from a cathemeral ancestor to a nocturnal/crepuscular niche, accompanied by coordinated sensory reallocation: regressive vision (corneal opacity, reduced acuity) with enhanced auditory and chemosensory systems.

  terrestris single-copy mammalian tapir whole-genome comparative ancestral

• Expression Atlas in 2026: enabling FAIR and open expression data through community collaboration and integration.

  PMID 41370097 · PMC12807774 · Nucleic acids research · 2026 · 8 claims · 8 setups

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  Expression Atlas has expanded to >4500 studies from 67 species, with increased proteomics coverage and updated GTEx tissue profiles

  species pig tissues gtex microarray bulk ms-based