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).

• TF2TG: an online resource mining the potential gene targets of transcription factors in Drosophila.

  PMID 40314147 · PMC12774851 · Genetics · 2026 · 8 claims · 8 setups

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  TF2TG is an online resource integrating motif scan data, ChIP-seq peaks (modENCODE/modERN), Hi-C (TADs), REDfly-curated CRMs, ATAC-seq, protein-protein interaction data, and tissue-specific expression to predict TF-target gene relationships in Drosophila

  drosophila combined motif chip-seq whole-animal

• The Aging Microenvironment Is a Determinant of Immune Exclusion and Metastatic Fate in Pancreatic Cancer.

  PMID 41202211 · PMC12768431 · Cancer research · 2026 · 8 claims · 8 setups

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  Organismal aging accelerates PDAC progression and metastatic burden in an age-relevant syngeneic orthotopic mouse model

  kpc4662 orthotopic pdac pancreatic orthotopic heterochronic ultrasound

• Hereditary chronic pancreatitis induced plasticity cooperates with mutant Kras in early pancreatic carcinogenesis.

  PMID 41419303 · PMC13151493 · Gut · 2026 · 8 claims · 8 setups

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  KC-Cpa1 mice show markedly increased pancreatic remodelling, fibrosis and metaplastic/PanIN lesion formation compared with KC mice

  pancreas cre acinar scrna-seq histology bulk single-cell

• Mechanical compression induces neuronal apoptosis, reduces synaptic activity, and promotes glial neuroinflammation in mice and humans.

  PMID 41481451 · PMC12773780 · Proceedings of the National Academy of Sciences of the United States of America · 2026 · 8 claims · 8 setups

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  Chronic mechanical compression (0.14 kPa) directly induces neuronal apoptosis in human iPSC-derived neurons cocultured with murine glia

  ipsc-derived gfp-expressing mglia astrocytes hoechst gfp+ immunofluorescence

• Annexin A13 Protects Against Acute Kidney Injury by Inactivating TGF-β/Smad3 Signaling.

  PMID 41486854 · PMC12915081 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 8 setups

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  ANXA13 is selectively downregulated in the kidneys of AKI patients and IRI- or cisplatin-induced AKI mice, primarily in proximal tubular cells

  kidney aki renal hek293t rna-seq immunohistochemistry serum

• Tachykinin signaling defines distinct populations of glia in the enteric nervous system.

  PMID 41512855 · PMC12832054 · Neuron · 2026 · 8 claims · 8 setups

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  Mucosal and muscularis glia are transcriptionally distinct populations, with mucosal glia resembling microglia and muscularis glia resembling satellite glia/astrocytes

  ileum gfp+ intestinal intestine bulk scrna-seq bayesprism

• Distinct phenotypes and repertoires of bronchoalveolar and airway mucosal T cells in health and allergic asthma.

  PMID 41519381 · PMC12983186 · Mucosal immunology · 2026 · 8 claims · 6 setups

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  BAL and endobronchial brush sampling capture phenotypically and clonally distinct T cell populations

  sorted paired bal subjects single-cell fluorescence-activated methacholine

• YAP/TAZ-VGLL3 governs adipocyte fate via epigenetic reprogramming of PPARγ and its target enhancers.

  PMID 41533786 · PMC12802833 · Science advances · 2026 · 8 claims · 8 setups

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  TAZ represses PPARγ-bound target enhancers, evidenced by markedly reduced H3K27ac occupancy, leading to transcriptional repression of adipogenic genes including Pparg2

  c3h10t1 inguinal iwat adipose atac-seq rna-seq immunoblot

• OTX2 inhibits human pluripotent stem cell reprogramming toward 8-cell-like and morula-like states.

  PMID 41554740 · PMC12909843 · Nature communications · 2026 · 8 claims · 8 setups

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  OTX2 establishes a repressive barrier to the induction of 8CLCs from primed hPSCs

  tprx1-egfp otx2-ko primed preimplantation flow bulk single-cell

• IGF2BP3-dependent glutamine/BCAA metabolic rewiring rejuvenates aged human adipose-derived stem cells for enhanced tissue regeneration.

  PMID 41559031 · PMC12819398 · Cell discovery · 2026 · 8 claims · 8 setups

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  Aging reduces hASC self-renewal, lineage plasticity (adipogenic/osteogenic differentiation), and in vivo tissue repair efficacy

  i-hascs full-thickness nude hascs edu scratch adipogenic

• Atlas-guided discovery of transcription factors for T cell programming.

  PMID 41639465 · PMC13017511 · Nature · 2026 · 8 claims · 8 setups

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  A multi-omics atlas (Taiji pipeline) integrating RNA-seq and ATAC-seq across nine CD8+ T cell states can predict TF activity and identify state-selective versus multi-state TFs

  cd8+ lcmv p14 c57bl rna-seq pearson crispr

• ISG15-driven immune modulation and tumor progression in breast cancer metastasis: insights from single-cell and spatial transcriptomics.

  PMID 41639695 · PMC12958617 · BMC medicine · 2026 · 8 claims · 8 setups

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  CSC proportion is elevated in lymph node metastatic tumor tissue (BRCA_LNMT) compared to primary tumor (BRCA_PT)

  4t1 brca tcga-brca top single-cell spatial bulk

• Single-cell transcriptomics reveals keratinocyte dynamic processes associated with S100a4 expression in psoriasiform dermatitis.

  PMID 41660613 · PMC12876221 · Frontiers in immunology · 2025 · 7 claims · 8 setups

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  S100a4 knockout mice show significant pathological improvement in psoriasis-like lesions, including reduced inflammatory cell infiltration and decreased epidermal hyperplasia

  c57bl skin dorsal dcmo crispr western imiquimod-induced

• Integrative Multiomic Classification Reveals Distinct Origins and Evolutionary Trajectories of Thymic Epithelial Tumors.

  PMID 41671387 · PMC13012242 · Cancer research · 2026 · 8 claims · 8 setups

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  TETs stratify into three molecular subgroups with distinct origins: GTF2I-type thymomas, CN-type thymomas, and thymic carcinomas

  tet thymic hek293t whole-exome whole-genome bulk

• Heritable ER stress impairs mitochondrial metabolism and maintenance of hematopoietic stem cells after low-dose irradiation.

  PMID 41675062 · PMC12886522 · iScience · 2026 · 8 claims · 8 setups

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  Proliferating 20 mGy-irradiated HSC exhibit oxidative stress and altered metabolism with increased mitochondrial ROS and mitochondrial Ca2+ overload compared to non-irradiated HSC

  cd45.1 hsc hspc-enriched bone flow carbonylation

• Amelioration of colorectal cancer-associated fibroblasts in immunosuppressive microenvironment by ferroptosis-based nanotherapy.

  PMID 41690961 · PMC13018587 · Nature communications · 2026 · 8 claims · 8 setups

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  CAFs drive tumor-promoting activity and immunosuppression, contributing to CRC immunotherapy resistance

  crc patient-derived hct116 models bioinformatic cytotoxicity bio-tem

• Advanced Glycation End-Products Contribute to Delayed Diabetic Corneal Epithelial Wound Healing via the TLR4 Signaling.

  PMID 41718657 · PMC12927432 · Investigative ophthalmology & visual science · 2026 · 8 claims · 8 setups

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  AGE accumulation is significantly increased in diabetic corneas compared to normal corneas

  bmdcs bmdc corneal t1dm sequencing western quantitative

• Aging-associated differences in mammary tumor-initiating populations and immune evasion pathways in breast cancer.

  PMID 41719331 · PMC12933083 · Proceedings of the National Academy of Sciences of the United States of America · 2026 · 8 claims · 8 setups

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  Age at NMU exposure critically influences tumor incidence, mutational burden, molecular subtype, and the tumor immune microenvironment

  virgin mammary tcga-brca carcinogen-induced immunofluorescence bulk

• Single-cell epigenetic profiling reveals a tumor-intrinsic interferon response program in ccRCC tied to poor prognosis and BAP1 loss.

  PMID 41719400 · PMC12922754 · Science advances · 2026 · 8 claims · 8 setups

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  Subclustering of ccRCC tumor cells reveals four shared epigenetic programs (C0-C3) recurrent across patients, cohorts, and disease stages

  rcc internal tumor state-specific single-cell multiome copy

• Epigenetic profiling of hematopoietic stem cells from male mice identifies KDR and PU.1 as regulators of aging transcriptome and caloric restriction response.

  PMID 41720793 · PMC13035812 · Nature communications · 2026 · 8 claims · 8 setups

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  Lifelong CR reduces white blood cell production and shifts hematopoiesis toward myeloid and thrombo-erythroid lineages while suppressing lymphoid output

  peripheral sorted young aged complete flow bulk