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).

• Tight junction-high and CDH17-positive cell population is the source of colorectal cancer liver metastases.

  PMID 41484106 · PMC12881549 · Nature communications · 2026 · 8 claims · 8 setups

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  Loss/inhibition of IKKα unexpectedly promotes, rather than suppresses, CRC liver metastasis in patient-derived organoid (PDO) xenograft models.

  pdo5 pdo5-derived crc dld1 intrasplenic immunohistochemistry kaplan-meier

• TGFβ induces an atypical EMT to evade immune mechanosurveillance in lung adenocarcinoma dormant metastasis.

  PMID 41492090 · PMC12858408 · Nature cancer · 2026 · 7 claims · 8 setups

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  TGFβ initially induces a full, typical EMT (stress fibers, loss of epithelial markers, motility) in dormancy-competent LUAD progenitors that subsequently transitions into an atypical spheroidal mesenchymal state lacking actin stress fibers.

  h2087-lcc m802t4-lcc reconstructed immunofluorescence antibody-mediated

• Multimodal epigenetic and enhancer network remodeling shape the transcriptional landscape of human beige adipocytes.

  PMID 41501500 · PMC12881478 · Communications biology · 2026 · 8 claims · 8 setups

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  The white adipocyte transcriptional program is tightly linked to promoter-level modulation of H3K27ac and chromatin accessibility.

  adipose asc-derived white ascs bulk atac-seq chip-seq

• Immuno-metabolic dysregulation in type 2 diabetes is associated with altered neutrophil functional plasticity, mitochondrial dysfunction, and compromised responses in sepsis.

  PMID 41520116 · PMC12882159 · Journal of translational medicine · 2026 · 8 claims · 8 setups

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  Proportions of functionally restricted neutrophil subpopulations (phagocytosis-only vs NETosis-only) are significantly altered in T2D and fail to elicit an immune response upon sepsis induction

  peripheral bone plasma neutrophils flow bulk global

• A P4HA2 hypoxia signature derived from single cell atlas stratifies conserved subtypes with prognostic significance in cervical squamous cell carcinoma.

  PMID 41559646 · PMC12910786 · BMC cancer · 2026 · 6 claims · 8 setups

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  A tumor cell metaprogram (MP7) identified from scRNA-seq of CSCC shows elevated hypoxia, invasion, metastasis, proliferation, and angiogenesis scores compared to other metaprograms.

  cscc tcga-cscc mp7 siha single-cell bulk gene

• Identify GDPD3 as a key regulator of epithelial-mesenchymal transition and prostate adenocarcinoma progression via the LPA/LPAR1/AKT axis: transcriptomic and experimental study.

  PMID 41562071 · PMC12813044 · Frontiers in immunology · 2025 · 7 claims · 8 setups

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  GDPD3 is upregulated in PRAD tumor tissue and its knockdown inhibits tumor cell proliferation, invasion, and migration

  prad tcga-prad du145 scrna-seq bulk wgcna

• FOXA1 mutations co-opt nascent transcription factor networks in partnership with androgen receptor to enhance prostate tumorigenicity.

  PMID 41621066 · PMC13050545 · Cell reports · 2026 · 8 claims · 8 setups

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  FOXA1 mutations in a 874-tumor cohort cluster into missense, in-frame indel, and truncation subgroups, with indels concentrated at residues M253/E255

  prostate targeted single-nucleus scatac-seq

• POSTN(+) fibroblast‑secreted small extracellular vesicles drive macrophage M2 polarization through BMP4/BMPR2/Smad signaling.

  PMID 41645751 · PMC12891935 · Oncology reports · 2026 · 8 claims · 8 setups

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  Integration of two HNSCC scRNA-seq datasets reveals two distinct fibroblast subtypes: POSTN- and POSTN+ fibroblasts

  hnscc tcga-hnscc oscc oscc-derived single-cell bulk immunohistochemistry

• Maternal Fine Particulate Matter Exposure Impairs Inguinal White Adipose Tissue Plasticity in Middle-Aged Male Mouse Offspring.

  PMID 41648986 · PMC12918713 · ACS nano · 2026 · 7 claims · 8 setups

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  Maternal PM2.5 exposure induces insulin resistance in middle-aged male (but not female) offspring despite normal body weight/obesity status

  pregnant iwat adsc whole-body body histology

• A single microRNA miR-195 rescues the arrested B cell development induced by EBF1 deficiency.

  PMID 41649478 · PMC12880805 · eLife · 2026 · 8 claims · 8 setups

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  Mir195 transduction rescues Ebf1-deficient HPCs, inducing CD19 expression and a B-lineage gene expression program

  wild-type ebf1 nog mir195 flow cdna engraftment

• BMP and NODAL paracrine signalling regulate the totipotent-like cell state in embryonic stem cells.

  PMID 41660012 · PMC12876259 · Frontiers in cell and developmental biology · 2025 · 7 claims · 8 setups

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  BMP and NODAL (TGF-β) paracrine signalling are key routes of intercellular communication that respectively enhance or diminish the totipotent-like cell (TLC) state in mouse ESCs

  escs esc scrna-seq cellchat differential

• 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

• Increased IL4I1 expression predicts poor survival and modulates the immune microenvironment in acute myeloid leukemia.

  PMID 41680858 · PMC12910993 · Journal of translational medicine · 2026 · 8 claims · 8 setups

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  IL4I1 mRNA expression is significantly elevated in AML compared to normal controls

  tcga-laml bone thp-1-derived thp-1 bulk kaplan-meier deg

• 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

• Single-cell mapping of cholesterol metabolism reveals FDPS as a therapeutic vulnerability in hepatocellular carcinoma.

  PMID 41706364 · PMC12916967 · Cellular oncology (Dordrecht, Netherlands) · 2026 · 7 claims · 8 setups

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  Cholesterol metabolic activity is markedly elevated in HCC tumors and in immune checkpoint blockade (ICB) non-responders, with pronounced intratumoral heterogeneity across malignant cell subpopulations

  hcc tcga-lihc malignant hepa1-6 scrna-seq bulk hdwgcna

• Integrative bulk and single-cell transcriptomics link EZH2 to immunosuppressive programs and tumor-Treg crosstalk in castration-resistant prostate cancer.

  PMID 41710887 · PMC12909565 · Frontiers in immunology · 2026 · 8 claims · 8 setups

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  Higher EZH2 expression is associated with adverse clinical outcomes in bulk PCa/CRPC cohorts

  tcga-prad su2c gse264573 gse137829 bulk scrna-seq ligand-receptor

• SLC25A37 as a novel therapeutic target for benign prostatic hyperplasia: integrative analyses of single-cell RNA sequencing and genome-wide association studies.

  PMID 41726128 · PMC12917586 · Open medicine (Warsaw, Poland) · 2026 · 8 claims · 8 setups

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  SLC25A37 is causally associated with increased BPH risk, supported by MR, Bayesian colocalization, and reverse MR analyses

  prostate gwas eqtl bph single-cell mendelian bayesian

• Isoform-specific single-cell perturb-seq reveals distinct functions of alternative promoters in drug response.

  PMID 41728950 · PMC12926921 · Nucleic acids research · 2026 · 5 claims · 8 setups

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  CRISPR-dCas9-based screens exhibit widespread promoter specificity, with untargeted promoters often showing compensatory upregulation to maintain overall gene expression

  mcf-7 rpe1 mcf-7-dcas9 tissue-wide isoform-specific reanalysis qrt-pcr

• Multi-omics analyses related to mitochondria and ageing in triple-negative breast cancer implicate PYCR1 potentiates tumor progression.

  PMID 41749247 · PMC13041056 · Cancer cell international · 2026 · 8 claims · 8 setups

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  A 4-gene mitochondrial ageing-related risk score (MARS) model (PYCR1, MAPT, CEBPA, BCL2A1) predicts TNBC prognosis

  tcga-brca gse58812 gse18728 metabric bulk single-cell immunohistochemistry

• ASCL1 promotes nuclear shrinkage in transdifferentiation by suppressing NUP37.

  PMID 41759523 · PMC12985393 · Stem cell reports · 2026 · 7 claims · 8 setups

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  ASCL1-mediated transdifferentiation (AMp) of human fibroblasts to induced neurons causes marked nuclear shrinkage while cell size remains unchanged

  mrc5 ag22056 ipsc-derived embryonic immunofluorescence single-cell rt-qpcr