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).

• Integrating single-cell and bulk transcriptomes to reveal prognostic and immunological features of ecDNA-related genes in osteosarcoma.

  PMID 42047819 · PMC13125642 · Cancer immunology, immunotherapy : CII · 2026 · 7 claims · 8 setups

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  A novel ecDNA-related Gene Prognostic Score Model (EGPSM) was constructed using an integrated framework of 101 machine learning algorithm combinations and validated in training, testing, and external cohorts.

  osteosarcoma treatment-naive bulk 143b bulk single-cell cibersort

• Bayesian inference of tissue-migration histories in metastatic cancer from cell-lineage tracing data.

  PMID 41916276 · PMC13261679 · Cell genomics · 2026 · 8 claims · 5 setups

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  BEAM jointly infers a full posterior distribution over cell-lineage phylogenies and tissue-migration graphs using a Bayesian model built on BEAST 2

  simulated orthotopic somatically simulated single-cell bulk

• Hypoxia-Induced Osteopontin-Positive Glioma-Associated Macrophages Facilitate Glioma Mesenchymal Transition via NF-κB Pathway Activation.

  PMID 41625475 · PMC12857759 · Cancer communications (London, England) · 2026 · 6 claims · 8 setups

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  A subset of GAMs with elevated OPN expression accumulates in response to hypoxic stimulation

  thp-1 glioma orthotopic gbm bulk single-cell spatial

• CRISPR-based functional genomics for dissecting therapeutic dependency in primary acute myeloid leukemia samples.

  PMID 41759529 · PMC13036604 · Molecular cell · 2026 · 8 claims · 8 setups

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  An optimized dual-lentiviral CRISPR-Cas9 knockout system with fluorescent markers, SFFV promoter, and improved sgRNA backbone (LRG2.1) achieves efficient, low-toxicity gene editing in AML PDX and primary patient samples

  aml pdx#2263 molm-13 pdx#062614 crispr pooled domain-focused

• An engineered tumor organoid model reveals cellular identity and signaling trajectories underlying SFPQ-TFE3 driven translocation RCC.

  PMID 40463960 · PMC12131257 · iScience · 2025 · 8 claims · 7 setups

  Has reproduction · 88

  SFPQ-TFE3 expression is sufficient to transform normal kidney epithelial tubuloids into tRCC

  kidney tubuloids immunodeficient tub rt-qpcr western histology

• Hypoxia-driven remodeling of SELENOP(+) macrophages shapes T cell dynamics and promotes ovarian cancer metastasis.

  PMID 41526347 · PMC12852879 · Nature communications · 2026 · 8 claims · 8 setups

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  SELENOP+ macrophages co-occur and spatially co-localize with precursor exhausted (GZMH+) CD8+ T cells and activate these T cells via selenoprotein P in vitro and in vivo.

  hgsoc million pseudo-bulk hgsoc-derived scrna-seq sctcr-seq spatial

• Targeting the Lipid Metabolism Proteins FASN and GPAM in Alveolar Type II Cells Decreases Lung Metastasis.

  PMID 41778850 · PMC7619144 · Cancer discovery · 2026 · 7 claims · 8 setups

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  AT2 cells and surfactant lipids (e.g., PC, PE, PI, PG) are enriched in the vicinity of breast cancer lung metastases in both patients and mice

  postmortem lungs lung at2 immunohistochemistry maldi-msi longitudinal