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).

• Molecular Biomarker of Drug Resistance Developed From Patient-Derived Organoids Predicts Survival of Colorectal Cancer Patients.

  PMID 35425715 · PMC9004628 · Frontiers in oncology · 2022 · 8 claims · 7 setups

  Has reproduction · 53

  Patient-derived colorectal cancer organoids (CRCOs) can be established from surgical CRC tissue with an 82% success rate (41/50)

  crc colorectal crcos crco organoid drug bulk

• Patient-Derived Meningioma Organoids: A Reliable Model for Studying Human Tumor Pathophysiology.

  PMID 39941893 · PMC11817449 · Cancers · 2025 · 8 claims · 7 setups

  Has reproduction · 50

  A standardized, reproducible protocol can establish meningioma organoids (MEN-Os) from patient-resected tumor tissue without mechanical/enzymatic dissociation, using serum-free medium lacking growth factors or exogenous ECM.

  patient-resected men-os parent oct-embedded organoid brightfield h&e

• Protocol for generating and characterizing Matrigel-free prostate cancer patient-derived organoids.

  PMID 41955100 · PMC13091043 · STAR protocols · 2026 · 7 claims · 7 setups

  Full-text index only

  A Matrigel-free culture protocol improves both take-rate and proportion of tumor cells within PCa PDO cultures compared to traditional Matrigel-based approaches

  pca turp ffpe organoid serial frozen

• Olfactory epithelium organoid models identify Ddit3 as a potential therapeutic target against inflammation-related olfactory sensory neuronal loss and functional deficit.

  PMID 42088417 · PMC13137857 · International journal of biological sciences · 2026 · 8 claims · 8 setups

  Full-text index only

  Three inflammatory OE organoid models (LPS instillation, TNFα treatment, doxycycline induction) were established and mimic impaired cell proliferation and neuronal genesis seen in olfactory inflammation

  organoid organoids ddit3 olfactory organoid bulk aav-shrna

• Establishment of a canine urothelial carcinoma-derived organoid biobank: A platform for comparative and translational research.

  PMID 41889014 · PMC13140855 · Clinical and translational medicine · 2026 · 8 claims · 6 setups

  Full-text index only

  Canine urothelial carcinoma closely resembles human muscle-invasive bladder cancer in histopathology, molecular features, biological behavior, metastatic patterns, therapeutic response, and clinical outcome

  canine matched paired urine immunohistochemistry bulk single-nuclei

• Pulmonary organoid models demonstrate compositionally driven epithelial plasticity and immune polarization.

  PMID 41940331 · PMC13049529 · iScience · 2026 · 8 claims · 7 setups

  Full-text index only

  Cellular composition at seeding (PD vs. BAL vs. Mixed) directs epithelial fate and immune polarization in organoid culture

  lung day organoid epithelial scrna-seq brightfield h&e

• De novo H3.3K27M-altered diffuse midline glioma in human brainstem organoids to dissect GD2 CAR T cell function.

  PMID 41492091 · PMC12948678 · Nature cancer · 2026 · 8 claims · 8 setups

  Full-text index only

  FGF4 supplementation during organoid patterning specifically induces pontine/rostral hindbrain brainstem identity

  hes brainstem day developing bulk immunofluorescence scrna-seq

• A human tumor-immune organoid model of glioblastoma.

  PMID 41505256 · PMC12969483 · Cell reports · 2026 · 8 claims · 8 setups

  Full-text index only

  iHOTT is an autologous co-culture platform integrating patient-derived tumor cells and matched PBMCs within human cortical organoids

  ihott sorted recurrent flow immunostaining multiplex

• Uropathogenic Escherichia coli invade luminal prostate cells via FimH-PPAP receptor binding.

  PMID 41507584 · PMC12872464 · Nature microbiology · 2026 · 8 claims · 8 setups

  Full-text index only

  A 2D mouse stem cell-derived prostate epithelial organoid model was developed that mimics epithelial heterogeneity of the murine prostate

  prostate bladder immunofluorescence single-cell transepithelial

• Functional human salivary gland organoids for tissue regeneration in chemically defined culture systems.

  PMID 41707649 · PMC12923968 · Cell reports. Medicine · 2026 · 8 claims · 8 setups

  Full-text index only

  A chemically defined, Matrigel-free complete medium (CM) generates hSGOs with more cohesive spheroid morphology, organized epithelial layers, and improved apical polarization compared to keratinocyte medium (KM-S) or Matrigel-embedded conditions

  submandibular smg-derived hsgos smg bright-field h&e single-factor

• A cell atlas of multiple liver organoids and the fetal liver based on scRNA-seq.

  PMID 41736863 · PMC12927097 · iScience · 2026 · 8 claims · 8 setups

  Full-text index only

  A unified liver organoid cell atlas of 217,025 high-quality cells was constructed by integrating scRNA-seq data from 15 organoid samples across 9 studies with human fetal liver data (5-19 weeks gestation)

  liver fetal endoderm-derived mesoderm-derived scrna-seq pseudotime pearson

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

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

  Full-text index only

  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

• Enhancing chemotherapy response prediction via matched colorectal tumor-organoid gene expression analysis and network-based biomarker selection.

  PMID 39754813 · PMC11754497 · Translational oncology · 2025 · 6 claims · 8 setups

  Has reproduction · 78

  A consensus WGCNA approach combining matched tumor-organoid and independent organoid drug-response expression data identifies gene modules and hub genes predictive of 5-FU chemotherapy response

  colorectal matched combined expression microarray rna-seq consensus

• comBO: A combined human bone and lympho-myeloid bone marrow organoid for preclinical modeling of hematopoietic disorders.

  PMID 41734765 · PMC7618947 · Cell stem cell · 2026 · 8 claims · 8 setups

  Has reproduction · 65

  comBO is a single iPSC-derived organoid differentiation that generates osteolineage, vascular, lymphoid, and myeloid compartments together

  hipsc-derived combo combo-derived healthy-donor flow single-cell confocal

• An in vivo and in vitro spatiotemporal profile of human midbrain development.

  PMID 41633979 · PMC12877092 · Nature communications · 2026 · 8 claims · 6 setups

  Full-text index only

  By 22 post-conceptional weeks (PCW), fetal ventral midbrain tissue exhibits structural complexity comparable to adult tissue

  fetal ipsc-derived dopamine immunohistochemistry immunofluorescence droplet-based

• Wnt-presenting materials sustain H3K14-acetylation in human skeletal stem cells for tissue engineering and bone repair.

  PMID 41844625 · PMC13250124 · NPJ Regenerative medicine · 2026 · 8 claims · 8 setups

  Full-text index only

  Localized Wnt3a signaling asymmetrically distributes H3K14ac between daughter cells during hSSC asymmetric cell division (ACD), with the Wnt-proximal cell retaining high H3K14ac and higher transcriptional activity (RNApolS2P)

  skeletal hssc hsscs wiotm immunofluorescence tunel doxycycline-inducible

• Modeling embryonic heart vascular plexus development and sympathetic innervation on a human heart organoid.

  PMID 41858891 · PMC12996818 · iScience · 2026 · 8 claims · 7 setups

  Full-text index only

  Modulating VEGF and PDGFβ signaling during EMO generation induces a functional, self-generated coronary-like vascular plexus (V-EMOs/P-EMOs)

  hipsc-derived d10cc v-emos emos immunofluorescence single-cell fluorescent

• Interferon-γ selectively promotes survival of alveolar progenitor cells in a human lung organoid model.

  PMID 41992061 · PMC13187038 · The EMBO journal · 2026 · 8 claims · 7 setups

  Full-text index only

  A new human ALVO model supports long-term expansion of alveolar progenitor cells and defined serum-free differentiation into AT1-like cells, improving on prior HTII-280-selection/serum-based protocols

  alvos organoid-derived sorted viability scrna-seq immunofluorescence

• Tensor-cell2cell v2 unravels coordinated dynamics of protein- and metabolite-mediated cell-cell communication.

  PMID 41719185 · PMC12937581 · Bioinformatics (Oxford, England) · 2026 · 8 claims · 4 setups

  Full-text index only

  Tensor-cell2cell v2 implements a non-negative coupled tensor component analysis (CTCA) that jointly factorizes protein- and metabolite-mediated communication tensors sharing context, sender, and receiver dimensions while keeping ligand-type-specific (private) dimensions separate.

  cortical paired single-cell protein-mediated metabolite-mediated

• Keratin 5 marks cancer-propagating cells sustained by an osteopontin-producing niche in high-grade serous ovarian carcinoma.

  PMID 42111394 · PMC13155427 · Cancer heterogeneity and plasticity · 2026 · 8 claims · 8 setups

  Full-text index only

  KRT5+ cells represent bona fide cancer-propagating cells (CPCs) in HGSC

  hgsc skov3 facs-sorted nod immunohistochemistry lentiviral organoid