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).

• Glioblastoma invasion into different organoid hosts reveals cell-intrinsic and proliferative migratory programs.

  PMID 41959666 · PMC13059114 · iScience · 2026 · 8 claims · 8 setups

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  GB cells invade both neural and endodermal organoid hosts (lineage-independent), whereas non-malignant neural progenitor cells show markedly reduced infiltration

  gbm1 gfp-gbm1 facs-sorted post-invasion image-based immunofluorescence single-cell

• The H3K36me3 methyltransferase SETD2 contributes to PAF1C interactions with RNA Pol II and is required for neuronal differentiation.

  PMID 41963556 · PMC13187324 · The EMBO journal · 2026 · 8 claims · 8 setups

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  SETD2 is required for establishment of neuronal gene expression during late stages of differentiation but is dispensable in mature neurons

  mesc-derived setd2-fkbp setd2-ko live-dead tet-inducible dtag-based

• Single-Cell Mitochondrial Lineage Tracing Decodes Fate Decision and Spatial Clonal Architecture in Human Hematopoietic Organoids.

  PMID 41560697 · PMC13042525 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 8 setups

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  Mitochondrial somatic mutations from scRNA-seq can be repurposed as endogenous genetic barcodes for lineage tracing in hPSC-derived organoids.

  hpsc hemo larry-barcoded pdgfrα+ scrna-seq mitochondrial cospar

• Impaired stem cell migration and divisions in Duchenne muscular dystrophy revealed by live imaging.

  PMID 41605927 · PMC12917047 · Nature communications · 2026 · 8 claims · 5 setups

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  mdx MuSCs show impaired migration and precocious differentiation through unbalanced symmetric divisions, driven by p38 and PI3K signalling, in contrast to the p38-only dependence of healthy MuSCs.

  fdb myofibres muscs intravital intravital myofibre retrospective

• Paneth cell SIRT1 deficiency increases intestinal stress resistance by modulating the gut microbiota.

  PMID 41826553 · PMC13076647 · EMBO reports · 2026 · 8 claims · 8 setups

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  Generated a novel Paneth-cell-specific SIRT1 knockout mouse model (SIRT1 PKO, Sirt1 f/f;Defa6-Cre+)

  small immune facs-sorted ileum single-cell facs qpcr

• Yap1 safeguards mouse embryonic stem cells from excessive apoptosis during differentiation.

  PMID 30561326 · PMC6307859 · eLife · 2018 · 7 claims · 8 setups

  Has reproduction · 50

  Yap1 knockout (KO) ESCs undergo massive, caspase-dependent cell death upon exiting self-renewal (LIF withdrawal), while self-renewing KO cells are unaffected.

  cj7 yap1 ldh live-cell flow

• Selective vulnerability of cerebral vasculature to NOTCH3 variants in small vessel disease and rescue by phosphodiesterase-5 inhibitor.

  PMID 41931622 · PMC13048245 · Science advances · 2026 · 7 claims · 8 setups

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  Brain-specific (neural crest-derived, NC-SMC) but not peripheral (LPM-SMC/PM-SMC) iPSC-derived VSMCs are selectively vulnerable to CADASIL NOTCH3 variants

  ipsc-derived ivsmcs immunofluorescence wound collagen

• AP-1 mediates cellular adaptation and memory formation.

  PMID 41862498 · PMC13168276 · Nature communications · 2026 · 8 claims · 7 setups

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  Cancer cells form and maintain cellular memories when becoming drug resistant, exhibiting cellular learning dependent on the transcription factor AP-1

  wm989 h2b-gfp h358 rna-seq atac-seq colony

• Persistence of alveolar fibroblast-derived ADAMTS4+ cells in a preclinical model of delayed pulmonary fibrosis resolution.

  PMID 42103706 · PMC13156320 · Nature communications · 2026 · 8 claims · 8 setups

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  Lipofibroblasts (LIFs/AF1) differentiate into myofibroblasts during fibrogenesis, with the reverse (MyoFB-to-LIF) trajectory occurring during fibrosis resolution

  aged live facs-sorted scrna-seq h&e masson's rnascope

• Umi-pipeline-nf: a modular and scalable workflow for UMI-tagged nanopore amplicon analysis with real-time sequencing integration and GPU-acceleration.

  PMID 41923360 · PMC13070649 · Bioinformatics (Oxford, England) · 2026 · 8 claims · 6 setups

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  umi-pipeline-nf is a portable, fully containerized, modular Nextflow DSL2 workflow that generates single-molecule consensus sequences from UMI-tagged nanopore amplicon data and scales linearly from single samples to large cohorts.

  lpa zymo sars-cov-2 nanopore real-time umi

• Dynamic single-cell transcriptomics reveals lsamp-guided neural network formation in male S. japonicum driving female reproduction.

  PMID 41571647 · PMC12905319 · Nature communications · 2026 · 8 claims · 8 setups

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  Generated a high-resolution single-cell transcriptomic atlas of 104,671 cells from male and female S. japonicum across four developmental stages, identifying 76 distinct cell populations

  dissociated japonicum reproductive gscs single-cell fluorescence-activated whole-mount

• miR-203 facilitates timely cell fate transitions via epigenetic modulation during early embryogenesis.

  PMID 41811946 · PMC12978216 · Science advances · 2026 · 8 claims · 8 setups

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  miR-203 is required for a timely totipotency-to-pluripotency transition during early mouse embryogenesis

  preimplantation 8-cell mice mir-203 qrt-pcr genotyping time-lapse

• Size-Modulated Mesoderm-Endoderm Divergence and Myocardial Cavitation in Micropatterned Cardioids.

  PMID 41837870 · PMC13248853 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 6 setups

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  Micropatterned cardioids generated from hiPSCs co-develop mesoderm-heart and endoderm-foregut/liver lineages, including a previously unreported non-neural ectoderm population.

  hipsc-derived crispr-engineered micropatterned scrna-seq whole-mount clearing single-cell