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).

• Multimodal antigenic escape to GPRC5D-targeted T cell engagers in multiple myeloma.

  PMID 41540108 · PMC13004696 · Nature medicine · 2026 · 7 claims · 7 setups

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  GPRC5D antigenic drift/mutational events occurred in 68.4% of relapsed cases following anti-GPRC5D TCE therapy (13/19 evaluable patients)

  cd138+ pbmcs cohort bulk single-cell targeted

• Single-nucleus RNA sequencing identifies a novel tenogenic heterologous differentiation in endometrial carcinosarcomas: implications for diagnosis and tumor classification.

  PMID 41537454 · PMC12805614 · The Journal of pathology · 2026 · 6 claims · 7 setups

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  snRNA-seq identifies a novel tenogenic heterologous differentiation program (SCX, MKX, TNMD) in an endometrial carcinosarcoma

  ffpe sections tumor cs4 single-nucleus immunohistochemistry fluorescence

• Genome Alteration Print (GAP): a tool to visualize and mine complex cancer genomic profiles obtained by SNP arrays.

  PMID 19903341 · PMC2810663 · Genome biology · 2009 · 7 claims · 3 setups

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  GAP is a method for automatic detection of absolute segmental copy number and genotype status from SNP-array cancer genome profiles

  breast snp flow karyotyping

• Single-cell protein activity analysis reveals aberrant myogenesis and IGF2-PI3K pathway dependencies in MYOD1-mutant rhabdomyosarcoma.

  PMID 41758938 · PMC12947870 · Science advances · 2026 · 8 claims · 8 setups

  Has reproduction · 84

  MYOD1 L122R-mutant SRMS tumors contain three coexisting, conserved cell states (progenitor, transition, differentiated) reflecting aberrant myogenic differentiation

  patient-derived tumor single paired single-nucleus infercnv aracne-ap

• Bridging cancer cell-intrinsic driver genes and -extrinsic cell-cell communication with Driver2Comm.

  PMID 41701761 · PMC12928580 · PLoS computational biology · 2026 · 8 claims · 5 setups

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  Driver2Comm is a computational framework that identifies intrinsic-extrinsic (IE) pathways functionally connecting cancer cell driver genes with their associated CCC signatures in the TME using single-cell transcriptomics data.

  pdac genes tcga single-cell copy fisher's

• Wnt3-mediated fibrosis and carcinogenesis of lung squamous cell carcinoma in idiopathic pulmonary fibrosis.

  PMID 42063567 · PMC13127482 · iScience · 2026 · 8 claims · 8 setups

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  LUSC arising within UIP originates from AT2-derived metaplastic basal cells

  fresh-frozen same scrna-seq paired single-cell copy ligand-receptor

• The promise and reality of personal genomics.

  PMID 19723346 · PMC2768970 · Genome biology · 2009 · 7 claims · 6 setups

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  Despite being the most complete and accurate individually sequenced human genome to date, AK1 sequencing still misses a substantial fraction of variants, showing sequencing technology remains far from complete/reliable.

  ak1 six whole-genome copy-number genotyping-based

• Cis-regulatory evolution reveals sensory trade-offs as a genetic basis for temporal niche evolution in tapirs.

  PMID 41779860 · PMC12959415 · Science advances · 2026 · 8 claims · 8 setups

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  Tapirs reverted from a cathemeral ancestor to a nocturnal/crepuscular niche, accompanied by coordinated sensory reallocation: regressive vision (corneal opacity, reduced acuity) with enhanced auditory and chemosensory systems.

  terrestris single-copy mammalian tapir whole-genome comparative ancestral

• A 15-layer multi-omics analysis of gastric cancer ecotypes provides therapeutic insights.

  PMID 42013851 · PMC13198309 · Cell reports. Medicine · 2026 · 8 claims · 8 setups

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  A 15-layer multi-omics atlas of 159 primary gastric adenocarcinomas and 30 matched normal adjacent tissues was generated, including previously unprofiled layers such as glycoproteomics, XL-MS-based PPI mapping, metabolomics, and tumor microbiome data

  gastric whole-exome methylation sequencing

• Multi-cohort and single-cell profiling of aging genes reveals prognostic and therapeutic targets in breast cancer.

  PMID 41732271 · PMC12924738 · iScience · 2026 · 8 claims · 7 setups

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  The eight-gene MLAG signature outperforms 100 previously published prognostic models across 12 independent breast cancer cohorts

  tcga-brca senescent normal single-cell machine univariate gene

• Emergence of oncofetal plasticity is ubiquitous in early colorectal cancers.

  PMID 41986711 · PMC13233332 · Nature · 2026 · 8 claims · 7 setups

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  Metastasis-associated oncofetal cell states emerge already at the earliest stages of colorectal cancer, concurrent with invasive front formation

  stage crc multiregional patient-derived spatial immunofluorescence whole-genome

• Paired-end mapping reveals extensive structural variation in the human genome.

  PMID 17901297 · PMC2674581 · Science (New York, N.Y.) · 2007 · 8 claims · 8 setups

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  Paired-end mapping (PEM) combining 3-kb fragment paired-end capture, massive 454 sequencing, and computational mapping detects SVs ~3 kb or larger with an average breakpoint resolution of 644 bp

  genomic na15510 stretched reference paired-end pcr array

• Longitudinal Profiling of Tumor and Immune Compartments Uncovers Patterns of Dysregulation and Associations with Response in Multiple Myeloma.

  PMID 41364805 · PMC13012255 · Blood cancer discovery · 2026 · 7 claims · 8 setups

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  IFN-γ signaling after autologous stem cell transplant (ASCT) is associated with markers of impaired CD8+ T-cell memory phenotype

  cd138neg cd138pos bone cd8+ single-cell bulk whole-genome

• Spatial gene expression analysis reveals drivers of extremely early lymph node metastasis in breast cancer.

  PMID 41578129 · PMC12932634 · NPJ breast cancer · 2026 · 8 claims · 7 setups

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  Identified 30 isolated tumor cells (ITCs) in a clinically metastasis-negative tumor-draining lymph node, representing the initial metastatic seeding event, spanning ~200 μm

  dissected same tumor xenium-derived bulk enzymatic whole-genome

• α4 Integrin blockade impairs CD8+ T cell neuroimmune surveillance following SIV infection.

  PMID 41734020 · PMC13078879 · The Journal of clinical investigation · 2026 · 8 claims · 8 setups

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  α4 blockade preserves CD4+ Th1 cell access to brain parenchyma but impairs CD8 effector recruitment, disrupting antiviral control

  siv-infected live macaque cd4-δitga4 flow antibody single-cell