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).

• 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

• Predicting the effect of CRISPR-Cas9-based epigenome editing.

  PMID 41524535 · PMC12795505 · eLife · 2026 · 8 claims · 6 setups

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  Machine learning (CNN and ridge regression) models trained on histone PTM ChIP-seq and RNA-seq data from 13 ENCODE cell types accurately predict endogenous gene expression, with transcriptome-wide correlations of ~0.70-0.79 for most cell types

  hek293t k562 computational chip-seq rna-seq mnase-seq

• Remodeling of XIST regulatory landscape during primate evolution.

  PMID 41544163 · PMC12810636 · Science advances · 2026 · 8 claims · 8 setups

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  XIST regulation has diverged uniquely and rapidly between closely related primates: JPX is a major XIST regulator in human and marmoset ESCs but only a minor regulator in macaque ESCs

  lyon-es1 rna-fish bulk capture

• Single-Cell Profiling Across Immune Tissues and Organs Reveals Immunosenescence Signatures in Male Rhesus Monkeys.

  PMID 41556329 · PMC13042567 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 7 claims · 8 setups

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  GZMB is markedly upregulated across multiple cell types in aged rhesus monkeys and serves as a candidate biomarker of immunosenescence

  bone cd8+ mesenteric sections single-cell gene pseudotime

• PRDM1+ Malignant Cells Mediate an Immunosuppressive Landscape and Resistance to Neoadjuvant Chemoradiotherapy and Immunotherapy in Esophageal Squamous Cell Carcinoma.

  PMID 41556358 · PMC13042517 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 8 setups

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  A PRDM1+ malignant epithelial cell subcluster (Epi_C4) is enriched in NMPR patients and is associated with nICRT treatment resistance

  locally escc pd-1 kyse-30 single-arm scrna-seq bulk

• 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

• Pharmacological perturbation of splicing elicits SMG1 reduction: Implications for cancer therapy.

  PMID 41623476 · PMC12857400 · iScience · 2026 · 7 claims · 12 setups

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  Splicing-modulatory drugs MS023 and indisulam act as inadvertent NMD inhibitors by downregulating SMG1 protein levels

  4t1 tumor-draining arst panc02 mts tumor ifn-γ

• Stem cell-associated osteogenic deficiency causes craniofacial deformities with progeroid accumulation of prelamin A.

  PMID 41632539 · PMC13041684 · JCI insight · 2026 · 8 claims · 8 setups

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  Lmna L648R mutation causes multiple suture craniosynostosis (AF, PF, COR) occurring under low bone density, contrasting with conventional synostosis caused by excessive ossification

  skull calvarial suture p7-p10 micro-ct h&e brdu

• Activating GCN2 and subsequently the Unfolded Protein Response with the small oral molecule NXP800 delays tumor growth in osteosarcoma.

  PMID 41644942 · PMC12895007 · Cell death discovery · 2026 · 7 claims · 13 setups

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  NXP800 decreases viability of osteosarcoma cell lines by blocking proliferation and inducing apoptosis

  mnng gcn2-gst nmri crystal clonogenic cycle

• 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

• Mitochondrial DNA methylation predicts immunotherapy response and prognosis in lung adenocarcinoma: evidence from scRNA-Seq and machine learning.

  PMID 41663976 · PMC12997902 · BMC cancer · 2026 · 8 claims · 8 setups

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  Differentially expressed MTDM-related genes (DEMTDMRGs) are significantly enriched in cell cycle regulation, ferroptosis, and ABC transporter pathways

  luad demtdmrgs gse131907 wgcna kegg univariate

• Single-cell transcriptomic analysis of plant quiescent center by third-generation sequencing reveals developmental trajectories.

  PMID 41664205 · PMC12990480 · Genome biology · 2026 · 8 claims · 8 setups

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  Developed an improved protoplasting/hand-picking protocol enabling isolation of intact QC cells for single-cell long-read RNA sequencing (SCAN-seq)

  arabidopsis single-cell rt-pcr agarose

• Multiomics combined drugs to explore the potential mechanism and treatment of ankylosing spondylitis.

  PMID 41673882 · PMC13047816 · Journal of orthopaedic surgery and research · 2026 · 8 claims · 8 setups

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  Effector CD8+ memory T (Tem) cells are significantly elevated in AS patients compared to healthy controls

  bone peripheral effector interspinous single-cell cibersortx cell-cell

• 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

• Dysregulated expression of cell cycle regulators CDC20, PLK1, BUB1, CDC45, CDCA5 in pancreatic ductal adenocarcinoma.

  PMID 41699006 · PMC13002898 · Scientific reports · 2026 · 8 claims · 8 setups

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  CDC20, PLK1, BUB1, CDC45, and CDCA5 are concordantly identified as hub genes across seven NCBI-GEO datasets and the Pakistani RNA-seq dataset

  pakistani pdac overlapping tcga-paad bulk functional protein-protein

• 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

• GATA2 controls alveolar macrophage inflammatory gene expression and metabolic function.

  PMID 41712459 · PMC13134736 · JCI insight · 2026 · 8 claims · 8 setups

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  GATA2 deficiency promotes enhanced inflammatory gene expression and metabolic dysfunction in alveolar macrophages in response to type 2 stimuli

  bal cd11c+ ams lung flow immunostaining bodipy

• Glutamine-mediated crosstalk between M2 macrophages and tumor cells via the SLC38A5/FOXM1/CNIH4 axis promotes oral squamous cell carcinoma progression.

  PMID 41715179 · PMC13020291 · Journal of translational medicine · 2026 · 8 claims · 8 setups

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  Glutamine secretion from M2 macrophages to tumor cells via SLC38A5 is the core mCCC pathway upregulated in metastatic OSCC lesions compared to primary lesions.

  oscc epithelial tcga-oscc hsc-3 scrna-seq hdwgcna bulk

• A muscle-centered hierarchical breakdown underlies flight loss during silkworm domestication.

  PMID 41716997 · PMC12915254 · iScience · 2026 · 8 claims · 8 setups

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  Flight loss in B. mori results from a muscle-centered collapse of a three-tiered hierarchical genetic module comprising mitochondrial energy production (COX3/ND1), wing vein patterning (Dally/CtBP), and flight muscle specification (Yki)

  wing wings flight mandarina single-cell spatial velocity

• The transcription factor EHF promotes the maturation and immunosuppression of conventional dendritic cells.

  PMID 41730908 · PMC13039115 · Nature communications · 2026 · 8 claims · 8 setups

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  EHF orchestrates an immunosuppressive maturation program in cDC1s and cDC2s downstream of TLR7/8/9 sensing of self-nucleic acids

  ehf facs-sorted dss-induced lethal cd4+