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).

• Pharmacogenomics of gemcitabine: can genetic studies lead to tailor-made therapy?

  PMID 17595663 · PMC2360307 · British journal of cancer · 2007 · 8 claims · 14 setups

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  A SNP in the cytidine deaminase (CDA) gene (208G>A, haplotype *3) decreases gemcitabine clearance, increases Cmax/AUC, and increases neutropenia risk when gemcitabine is combined with platinum drugs or 5-FU

  japanese paraffin-embedded tumour recombinant prospective immunohistochemistry pcr

• Downregulation of death-associated protein kinase 1 (DAPK1) in chronic lymphocytic leukemia.

  PMID 17540169 · PMC4647864 · Cell · 2007 · 8 claims · 13 setups

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  DAPK1 promoter is epigenetically silenced by DNA methylation in almost all sporadic CLL cases

  cd19+ leukemia raji jurkat quantitative cobra chromatin

• 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

• Ectopic CD11c Drives SMAD3-Mediated Aberrant Antigen Presentation and Epithelial-Mesenchymal Transition in Esophageal Squamous Cell Carcinoma.

  PMID 41799568 · PMC12963642 · Cancer communications (London, England) · 2026 · 8 claims · 13 setups

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  An ESCC epithelial cell subcluster with ectopic CD11c (ITGAX) expression, found in both mice and humans, exhibits concurrent impaired antigen presentation and EMT phenotypes

  4-nqo-induced escc esophageal lung multiplex flow whole-genome

• Defactinib inhibits PYK2 phosphorylation of IRF5 and reduces intestinal inflammation.

  PMID 34795257 · PMC8602323 · Nature communications · 2021 · 8 claims · 12 setups

  Has reproduction · 67

  PYK2 was identified as a putative IRF5 kinase via a kinase inhibitor library screen in macrophages

  raw264.7 hektlr4 hoxb8-derived colon kinase co-immunoprecipitation co-ip

• The Chromosome-Scale Genome Assembly of the Redlip Blenny, Ophioblennius macclurei (Blenniidae).

  PMID 41378738 · PMC12758960 · Genome biology and evolution · 2026 · 8 claims · 12 setups

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  A chromosome-scale genome assembly of O. macclurei was generated (529.6 Mb, scaffold N50 23.7 Mb, GC 43.49%) using ONT long reads, Illumina short reads, and Hi-C scaffolding.

  blood muscle tissues assembled oxford illumina hi-c

• 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

• Alternative splicing-triggered mRNA decay informs splice-switching targets for neurodevelopmental disorders.

  PMID 41678398 · PMC13078869 · The Journal of clinical investigation · 2026 · 7 claims · 12 setups

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  EANMD, a new computational tool, identifies AS-NMD exons using the 50 nt rule plus additional transcript-level features and outperforms existing tools (SpliceTools, NMD Classifier)

  neuro2a embryonic e14.5 cortical rna-seq pacbio rt-pcr

• Dietary conjugated linoleic acid enhances resistance to Salmonella infection by promoting PPARγ-mediated metabolic reprogramming and effector function in CD8⁺ T cells.

  PMID 41964110 · PMC13078244 · Gut microbes · 2026 · 8 claims · 12 setups

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  Dietary CLA supplementation enhances host resistance to Salmonella Typhimurium infection

  ileal mice serum culture 16s untargeted bulk

• D-amino acid aminotransferase1 regulates grain chalkiness in rice by modulating endoplasmic reticulum stress response.

  PMID 41790945 · PMC12974485 · Proceedings of the National Academy of Sciences of the United States of America · 2026 · 7 claims · 12 setups

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  OsDAAT1 (LOC_Os03g24460) encodes a D-amino acid aminotransferase that maternally regulates rice grain chalkiness

  rice recombinant map-based genomic crispr

• Identifying genetic and cellular connections and distinctions among 15 autoimmune diseases using an in-silico approach.

  PMID 41794919 · PMC13096160 · Communications medicine · 2026 · 8 claims · 12 setups

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  50.8% of AD-associated loci are shared across diseases when defined by physical proximity, but only 14.7% of signals are shared when defined by linkage disequilibrium, indicating shared loci often harbor distinct association signals and mechanisms.

  autoimmune multi-study tag immune gwas robust variant

• Dynamic interaction of MYC enhancer RNA with YEATS2 protein regulates MYC gene transcription in pancreatic cancer.

  PMID 40216980 · PMC12117045 · EMBO reports · 2025 · 8 claims · 11 setups

  Has reproduction · 90

  MYC eRNAs (notably MYC-490-kb) are transcribed from the MYC super-enhancer and are upregulated by chronic TNF-α stimulation specifically in pancreatic cancer cells, not normal pancreatic epithelial cells

  pdac miapaca-2 chronic myc-490-kb survival chip-seq nascent

• Integrated Single-Cell and Spatial Transcriptomic Analysis Identifies Putative Metabolic Crosstalk Between SPP1+ TAMs and SLC6A20+ Epithelial Cells in Colorectal Cancer.

  PMID 42279338 · PMC13255607 · Cancers · 2026 · 8 claims · 11 setups

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  A metabolically reprogrammed malignant epithelial subset (SLC6A20+ epithelial cells) and an immunosuppressive SPP1+ TAM subset were identified via integrated scRNA-seq analysis.

  crc myeloid spp1+ tcga-coad scrna-seq copy kegg

• Multi-omics landscape and functional validation of HCCS in breast cancer: from pan-cancer immunometabolic characterization to regulating tumor proliferation.

  PMID 42232519 · PMC13225780 · Frontiers in genetics · 2026 · 8 claims · 11 setups

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  HCCS is significantly upregulated in multiple malignancies, including BRCA, and correlates with poor patient prognosis

  tcga pan-cancer brca mda-mb-231 bulk copy reverse-phase

• Brown adipose tissue thermogenic adaptation requires Nrf1-mediated proteasomal activity.

  PMID 29400713 · PMC5839993 · Nature medicine · 2018 · 8 claims · 10 setups

  Has reproduction · 88

  Cold adaptation increases proteasomal activity in BAT, which is required for non-shivering thermogenesis

  bat body adipocytes mitochondria proteasomal core qpcr

• An AIB1 isoform rewires glucocorticoid receptor signaling to promote TNBC progression.

  PMID 41704785 · PMC12907120 · iScience · 2026 · 8 claims · 10 setups

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  GR antagonists (RU486, relacorilant) inhibit AIB1Δ4-driven invasion of DCIS cells in 3D invasion assays, zebrafish extravasation, and mouse xenograft models

  dcis kdrl nod e0771 sphere rt-qpcr shrna

• Identification and characterization of LEA gene family in physic nut and functional analysis of JcLEA1 under drought stress.

  PMID 41696166 · PMC12900697 · Frontiers in plant science · 2026 · 8 claims · 10 setups

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  24 LEA genes (JcLEA1-JcLEA24) were identified in the physic nut genome and classified into eight/nine evolutionary subgroups (LEA_1-LEA_6, DHN, SMP, AtM) via phylogenetic clustering with Arabidopsis and rice homologs.

  jatropha lea jclea physic genome-wide phylogenetic gene

• Adaptive evolution of gene regulatory networks in mammalian neocortex.

  PMID 41851468 · PMC13149332 · Nature · 2026 · 8 claims · 10 setups

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  Mammalian-specific CREs, including a subset bound by ZBTB18, are associated with genes defining IT and ET neocortical ExN subtypes and their connectivity

  arpp21-gfp+ pd0 microdissected cortex rna-seq h3k27ac zbtb18-ha

• Systematic identification of pan-cancer single-gene expression biomarkers in drug high-throughput screens.

  PMID 42113851 · PMC13160354 · PloS one · 2026 · 8 claims · 10 setups

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  A regression-based framework using z-score normalization and residual adjustment corrects tissue-specific bias in gene expression, enabling pan-cancer single-gene biomarker discovery from drug high-throughput screens

  cancer gdsc nci-60 a375 high-throughput transcriptomics regularized

• Systematic identification of ACE2 expression modulators reveals cardiomyopathy as a risk factor for mortality in COVID-19 patients.

  PMID 35012625 · PMC8743438 · Genome biology · 2022 · 8 claims · 9 setups

  Has reproduction · 68

  GENEVA (Gene Expression Variance Analysis) is a semi-automated framework that mines large-scale public RNA-seq datasets to identify conditions associated with a gene's expression variance

  gtex genetic lncap heart rna-seq meta-analysis electronic