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).

• Integrating single-cell and single-nucleus datasets improves bulk RNA-seq deconvolution.

  PMID 41895263 · PMC13106970 · Cell reports methods · 2026 · 8 claims · 5 setups

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  scRNA-seq references yield significantly higher Pearson correlation and lower RMSE than snRNA-seq references for deconvolution across all four tissue datasets

  adipose same fat-cell real pseudobulk single-cell synthetic

• The Ly6g(high) Neutrophil Subset Dictates Breast Cancer Lung Metastasis via CD8(+) T Cell Death.

  PMID 41625479 · PMC12857760 · Cancer communications (London, England) · 2026 · 8 claims · 8 setups

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  Neutrophils in the lung metastatic niche comprise two functionally distinct subsets, Ly6g^high and Ly6g^low, based on Ly6g expression level

  lung cramp cd8+ neutrophils single-cell flow genetic

• CCL3+ Neutrophil Signature Predicts Response to Neoadjuvant Toripalimab plus Chemotherapy in Patients with Hypopharyngeal Squamous Cell Carcinoma: A Phase II Trial.

  PMID 41817286 · PMC13223550 · Clinical cancer research : an official journal of the American Association for Cancer Research · 2026 · 7 claims · 8 setups

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  A proinflammatory, CCL3-high neutrophil subset (Neu_CCL3) is significantly enriched in the pretreatment tumor microenvironment of patients who respond to nCIT.

  pretreatment microarray cohorts moc1 single-cell bulk immunohistochemistry

• PD-1 blockade plus tyrosine kinase inhibitor remodels the tumor microenvironment in advanced renal cell carcinoma.

  PMID 41916996 · PMC13199584 · Nature communications · 2026 · 8 claims · 8 setups

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  Non-responders to TKI±ICI therapy show increased neutrophil infiltration and enrichment of SAA+ tumor cells after treatment.

  arcc pre post-treatment tumor single-cell multiplex ligand-receptor

• Single-cell landscape of piglet lung response with Actinobacillus pleuropneumoniae.

  PMID 41843736 · PMC13014559 · Virulence · 2026 · 8 claims · 8 setups

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  scRNA-seq of piglet lungs identified 18 cell subpopulations with distinct phenotypes in infected vs control lungs

  piglet monocytes bronchoalveolar single-cell hematoxylin-and-eosin immunohistochemistry

• Severe COVID-19 Shares a Common Neutrophil Activation Signature with Other Acute Inflammatory States.

  PMID 35269470 · PMC8909161 · Cells · 2022 · 8 claims · 7 setups

  Has reproduction · 88

  COVID-19 and HLH share a transcriptional overlap of 239 unique common differentially expressed genes (DEGs), 237 of which are up-regulated

  patients pbmcs plasma derived bulk single-cell quantitative

• scComm: a contrastive learning framework for deciphering cell-cell communications at single-cell resolution.

  PMID 41877186 · PMC13134144 · Genome biology · 2026 · 8 claims · 7 setups

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  scComm infers cell-cell communications at single-cell resolution using a data-adaptive L-R weighting module and supervised contrastive learning (SupCon loss) to distinguish significant CCC events from background noise

  simulated spatial liver single-cell simulated spatial scrna-seq

• Colorectal microenvironment determines the prognosis of colorectal cancer.

  PMID 41495419 · PMC12868731 · Experimental & molecular medicine · 2026 · 8 claims · 7 setups

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  The colorectal microenvironment (classified via NBT gene expression as tumor-supportive vs healthy) can serve as a prognostic biomarker predicting cancer invasiveness and recurrence

  paired nbt slide bulk bulk 16s single-cell

• Metabolic adaptations rewire CD4(+) T cells in a subset-specific manner in human critical illness with and without sepsis.

  PMID 41540263 · PMC12864044 · Nature immunology · 2026 · 8 claims · 7 setups

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  CD4+ T cells in critical illness show subset-specific metabolic plasticity, with regulatory T (Treg) cells preferentially acquiring glycolytic capacity

  pbmc-derived peripheral cd4+ puromycin-incorporation complete expression