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).

• Lactate and histone H3K18 lactylation are associated with metabolic control of gene expression in the retina.

  PMID 41950290 · PMC13095125 · PLoS genetics · 2026 · 8 claims · 8 setups

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  Enhanced ATP production during mouse retinal development is achieved primarily through an increase in glycolysis rather than mitochondrial respiration.

  retina histones histone retinal seahorse lactate-glo ldh

• Single-cell and spatial transcriptome analysis reveals the potential therapeutic targets for testicular sex cord-stromal cell tumor.

  PMID 42057139 · PMC13130799 · Biomarker research · 2026 · 8 claims · 8 setups

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  Tumor areas of TSCST show significantly low expression of immune cell genes, indicating an immune-cold tumor microenvironment

  fresh fetal paraffin-embedded paraffin single-nucleus scrna-seq spatial

• Sequential RNA polymerase II activation drives human hematopoiesis.

  PMID 41520338 · PMC13067999 · Cell reports · 2026 · 7 claims · 7 setups

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  sciCUT&Tag2in1 enables simultaneous single-cell combinatorial-indexing profiling of Pol II occupancy (Ser5/Ser2-phospho CTD) together with histone modifications (H3K4me1-2-3 or H3K27me3) in up to 50,000 cells per experiment

  g-csf-mobilized cd34+ 10-donor lineage-depleted scicut&tag2in1 individual souporcell

• The chromatin remodeller CHD4 regulates transcription factor binding to both prevent activation of silent enhancers and maintain active regulatory elements.

  PMID 41632506 · PMC12867480 · eLife · 2026 · 8 claims · 8 setups

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  CHD4 acts via a second mechanism beyond nucleosome sliding: actively restricting the residence time of transcription factors on chromatin

  chd4-maid sall1 western flow calibrated

• Bromodomain protein IBD1 bridges histone acetylation and H2A.Z deposition to fine-tune transcription.

  PMID 41728948 · PMC12926916 · Nucleic acids research · 2026 · 8 claims · 8 setups

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  IBD1's bromodomain recognizes H3K9/K14 di-acetylation to recruit the SWR complex subunit ARP6, ensuring precise H2A.Z incorporation into chromatin

  tetrahymena recombinant native cut&tag sequencing

• Pre-implantation embryo metabolism identified by PEMA reveals endogenous lactate insufficiency contributes to pre-implantation development arrest.

  PMID 42272466 · PMC13247451 · Fundamental research · 2026 · 6 claims · 7 setups

  Has reproduction

  PEMA, a computational tool that weights metabolic reactions using Ribo-seq data combined with RNA-seq-derived flux balance analysis, can characterize metabolic states of human and mouse pre-implantation embryos more precisely than existing methods like Compass.

  embryos pre-implantation ch3pn single-embryo immunofluorescence single-cell

• AGPAT3 reshapes tumor cell vulnerability to IFNγ-mediated ferroptosis and enhances immunotherapy efficacy through lipid remodeling.

  PMID 41807033 · PMC12983827 · Journal for immunotherapy of cancer · 2026 · 8 claims · 8 setups

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  A ferroptosis-driver gene signature (FD.sig) and machine learning model (FD.model) can predict ICI response

  pan-cancer tcga a375 machine single-cell bulk

• 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

• TBP regulates transposable element expression in early mouse embryos.

  PMID 41862641 · PMC13144441 · The EMBO journal · 2026 · 8 claims · 6 setups

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  The general transcription factor TBP binds and activates MaLR transposable elements in mouse embryos

  single embryos computational embryonic rna-seq atac-seq motif

• Comprehensive multi-omics reveals dynamic chromatin changes and gene regulatory networks during duck folliculogenesis.

  PMID 42063177 · PMC13134274 · Journal of animal science and biotechnology · 2026 · 8 claims · 6 setups

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  H3K27ac dynamics, rather than chromatin accessibility alone, are strongly associated with stage-specific transcriptional increases during follicle selection and maturation

  granulosa gcs chicken rna-seq atac-seq cut&tag

• 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

• Evolutionary innovation within conserved gene regulatory networks underlying biomineralized skeletons in Bilateria.

  PMID 41556888 · PMC12862220 · Molecular biology and evolution · 2026 · 8 claims · 6 setups

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  A biphasic regulatory program orchestrates larval and adult shell formation in Crassostrea nippona, involving coordinated activity of ancient transcription factors and dynamic chromatin remodeling

  crassostrea iso-seq rna-seq atac-seq

• Loss of SOCS1 in Donor T Cells Exacerbates Intestinal GVHD by Driving a Chemokine-Dependent Pro-Inflammatory Immune Microenvironment.

  PMID 41580972 · PMC13042394 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 8 setups

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  T cell-specific Socs1 loss intrinsically drives pro-inflammatory T cell differentiation independent of antigen stimulation, with the strongest effects in CD8+ T cells

  cd45+ splenic cd8+ sorted single-cell flow bulk

• 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+