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).

• omnideconv: a unifying framework for using and benchmarking single-cell-informed deconvolution of bulk RNA-seq data.

  PMID 41582216 · PMC12837286 · Genome biology · 2026 · 8 claims · 6 setups

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  omnideconv is an R package providing a unified interface to twelve second-generation deconvolution methods (AutoGeneS, BayesPrism, Bseq-SC, Bisque, CDseq, CIBERSORTx, CPM, DWLS, MOMF, MuSiC, SCDC, Scaden)

  blood-derived pbmc blood spleen bulk scrna-seq pseudo-bulk

• High-quality genome assembly and annotation of the white-cheeked goby, Rhinogobius duospilus (Herre, 1935) (Gobiiformes: Oxudercidae).

  PMID 41248690 · PMC12869079 · G3 (Bethesda, Md.) · 2026 · 6 claims · 7 setups

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  This is the first high-quality chromosome-level reference genome for R. duospilus

  duospilus pacbio hi-c rna-seq

• The ubiquitin ligase KLHL6 drives resistance to CD8(+) T cell dysfunction.

  PMID 41535474 · PMC12979199 · Nature · 2026 · 8 claims · 8 setups

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  KLHL6 is a dual-negative regulator of both T cell exhaustion and mitochondrial dysfunction

  cd8+ cas9+ sgklhl6-transduced klhl6 bulk pooled flow

• Developing a comprehensive database and search tool for single-cell ATAC-seq data.

  PMID 41545440 · PMC12816011 · Scientific reports · 2026 · 5 claims · 6 setups

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  scATAC.Explorer is a curated database containing 39 publicly available scATAC-seq datasets in a consistent format

  hematopoietic drosophila cancer scatac-seq sci-atac-seq sci-car

• Aged murine bone marrow myeloid and mesenchymal cells develop unique senescence phenotypes.

  PMID 41592025 · PMC13038201 · The Journal of clinical investigation · 2026 · 7 claims · 8 setups

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  Myeloid-lineage cells (monocytes, macrophages, myeloid progenitors) show the highest expression of p16 and SASP markers among bone marrow immune cell types in aged mice

  bone femur skeletal single-cell mass cytof

• Multi-omics profiling reveals microenvironmental remodeling as a key driver of house dust mite-induced lung cancer progression.

  PMID 41610471 · PMC12874334 · Neoplasia (New York, N.Y.) · 2026 · 8 claims · 7 setups

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  Chronic HDM exposure accelerates lung tumor growth through non-mutagenic, immune-mediated mechanisms

  orthotopic lung beas-2b tumor bioluminescence h&e viability

• Integrating transcriptomic datasets across neurological disease identifies unique myeloid subpopulations driving disease-specific signatures.

  PMID 36527260 · PMC10952672 · Glia · 2023 · 6 claims · 3 setups

  Has reproduction · 26

  The bulk microglial and monocyte transcriptomic program is highly contingent on the disease environment, challenging the notion of a universal microglial disease signature

  acutely microglia c57bl meta-analysis integration spectral

• From the gamma-glutamyl cycle to the glycan cycle: a road with many turns and pleasant surprises.

  PMID 19840938 · PMC2787308 · The Journal of biological chemistry · 2009 · 8 claims · 8 setups

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  γ-Glutamyl transpeptidase (GGT) activity in rat liver shows biphasic changes during azo dye-induced hepatocarcinogenesis, mirroring the oncofetal expression pattern of α-fetoprotein

  liver tissues ascites hepatoma spectrophotometric enzyme glycan

• FRMD8 inhibits tumor metastasis in BRCA1-associated TNBC by negatively regulating tmTNF-α.

  PMID 40619383 · PMC12229025 · Cellular & molecular biology letters · 2025 · 8 claims · 8 setups

  Has reproduction · 73

  Low FRMD8 expression in BRCA1-mutant breast cancer cells significantly enhances metastatic potential to various organs

  tnbc geo breast frmd8 bulk meta-analysis single-cell

• RSK1 is an exploitable dependency in myeloproliferative neoplasms and secondary acute myeloid leukemia.

  PMID 39820365 · PMC11739599 · Nature communications · 2025 · 8 claims · 8 setups

  Has reproduction · 73

  RSK1 is a conserved, exploitable therapeutic dependency across MPN and secondary AML

  sorted mpn cd34+ aml bulk targeted mass

• RNA interference in functional genomics and medicine.

  PMID 12808314 · PMC3055057 · Journal of Korean medical science · 2003 · 8 claims · 7 setups

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  RNAi is sequence-specific gene silencing induced by double-stranded RNA and is mediated by ~22-nt siRNAs generated from long dsRNA by the RNase III enzyme Dicer.

  caenorhabditis drosophila mammalian postnatal dsrna biochemical synthetic