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).

• Systematic annotation of orphan RNAs reveals blood-accessible molecular barcodes of cancer identity and cancer-emergent oncogenic drivers.

  PMID 41579861 · PMC12923976 · Cell reports. Medicine · 2026 · 8 claims · 8 setups

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  oncRNA binary presence-absence patterns constitute digital molecular barcodes that capture cancer type and subtype identity

  tcga exrna cptac mda-mb-231 small machine atac-seq

• The Functional RNA Database 3.0: databases to support mining and annotation of functional RNAs.

  PMID 18948287 · PMC2686472 · Nucleic acids research · 2009 · 8 claims · 5 setups

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  fRNAdb 3.0 is a completely rebuilt sequence database hosting a much larger collection of known/predicted non-coding RNA sequences with improved search functionality

  non-coding frnadb-hosted genomic mammalian sequence genome blastn

• Orthogonal cytokine engineering enables novel synthetic effector states escaping canonical exhaustion in tumor-rejecting CD8(+) T cells.

  PMID 37081150 · PMC10154250 · Nature immunology · 2023 · 8 claims · 7 setups

  Has reproduction · 37

  Orthogonal engineering with PD1d/IL-2v/IL-33 reprograms adoptively transferred CD8+ T cells into a novel synthetic effector state (C5/TSE) that deviates from canonical TOX+ exhaustion

  cd8+ b16-ova ot1 mice scrna-seq flow secretion

• Exploring phenotype-related single-cells through attention-enhanced representation learning.

  PMID 41566378 · PMC12906058 · Genome medicine · 2026 · 6 claims · 5 setups

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  scPhase, an attention-based multiple instance learning (AMIL) framework with Mixture-of-Experts aggregation, predicts sample-level clinical phenotypes from raw scRNA-seq data and generalizes across patient cohorts

  pbmcs brain tumor scrna-seq

• pmid-41741497

  PMID 41741497 · PMC13046873 · 7 claims · 8 setups

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  SexTumorDB is an integrated resource of RNA-seq profiles of non-reproductive tumors at single-cell resolution, curated, processed, and standardized from published datasets

  acute bladder clear colorectal scrna-seq snrna-seq