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).

• Divergent macrophage-regulated T cell states determine response to Bacillus Calmette-Guérin vaccine in high-risk bladder cancer.

  PMID 42081487 · PMC13262731 · The Journal of clinical investigation · 2026 · 8 claims · 8 setups

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  BCG responders show an increase in Th17-like Th1 CD4+ T cells with greater proinflammatory cytokine expression

  bladder pbmcs cd4+ separate scrna-seq trajectory flow

• Effects of HIV type-1 immune selection on susceptability to integrase inhibitor resistance.

  PMID 19918099 · PMC4155129 · Antiviral therapy · 2009 · 8 claims · 6 setups

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  Primary integrase inhibitor resistance mutations (T66I, E92Q, G140S, Y143C/H/R, Q148H/R/K, N155S/H) were absent in 342 drug-naive individuals, indicating these sites are highly constrained.

  plasma genomic viral aligned bulk sequence-based quantitative

• An individualized causal framework for learning intercellular communication networks that define microenvironments of individual tumors.

  PMID 36548438 · PMC9822106 · PLoS computational biology · 2022 · 8 claims · 6 setups

  Has reproduction · 67

  An individualized Bayesian causal discovery framework can learn tumor-specific intercellular communication networks (ICNs) by combining single-cell gene expression module (GEM) discovery, bulk tumor deconvolution, and individualized causal network learning.

  hnscc cd45+ cd8+ tcga single-cell bulk pseudo-time

• DAESC + : high-performance, integrated software for single-cell allele-specific expression data.

  PMID 41851619 · PMC13169709 · BMC bioinformatics · 2026 · 8 claims · 6 setups

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  DAESC+ is a dual-module, end-to-end software package (DAESC-P for preprocessing, DAESC-GPU for differential analysis) for single-cell ASE data

  onek1k endoderm simulated single-cell differential runtime

• Multi-omics evaluation of cell lines as models for metastatic prostate cancer.

  PMID 41876625 · PMC13171877 · Communications biology · 2026 · 8 claims · 8 setups

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  Substantial genomic differences exist between metastatic prostate cancer patient samples and prostate cancer cell lines, including hotspot mutations largely absent from cell lines.

  prostate metastatic su2c tcga somatic copy bulk

• A tumor-intrinsic WNT-inhibitory NOTUM program drives immune resistance in microsatellite stable colorectal cancer.

  PMID 42097145 · PMC13198260 · Cell reports. Medicine · 2026 · 8 claims · 7 setups

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  A distinct NOTUM/NKD1/APCDD1-high, WNT-inhibitory cancer cell population (WICC) emerges predominantly in advanced-stage MSS CRC

  crc patient-derived ibd mmr-proficient single-cell cell-cycle patient-level

• Tumour-brain crosstalk restrains cancer immunity via a sensory-sympathetic axis.

  PMID 41639447 · PMC12935554 · Nature · 2026 · 8 claims · 8 setups

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  Lung adenocarcinoma (LUAD) induces increased innervation and functional/transcriptional engagement of vagal sensory neurons (VSNs)

  kras-g12d tumour-bearing vagal npy2r-ires-cre whole-mount aav neurite

• The Presence of CD11c+ B Cells with Potent Effector Memory Phenotype in Lung Adenocarcinoma Correlates with Overall Patient Survival.

  PMID 41686183 · PMC12988592 · Cancer immunology research · 2026 · 7 claims · 7 setups

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  CD79A is a reliable transcriptomic/protein quantifier of B lymphocytes across differentiation stages, unlike CD19/CD20 whose expression changes upon activation

  healthy tcga luad til-b flow bulk single-cell

• Lactate metabolism-related interaction perturbation network enables robust stratification of hepatocellular carcinoma.

  PMID 41689750 · PMC13009326 · Discover oncology · 2026 · 8 claims · 8 setups

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  An LM-related gene interaction perturbation network can stratify HCC into four robust molecular subtypes (Cluster1-4)

  tcga-hcc gse76427 gene consensus immune

• IMIREG: a lineage-resolved regulon signature unveiling immune engagement archetypes and predicting immunotherapy response across diverse cancers.

  PMID 42092126 · PMC13234301 · NPJ precision oncology · 2026 · 8 claims · 8 setups

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  IMIREG, a 14-regulon transcriptional signature, robustly predicts clinical benefit from ICB across 50 immunotherapy cohorts (52 treatment arms) spanning 16 cancer types with mean AUROC = 0.71

  imvigor210 matched gtex healthy bulk scrna-seq pathway