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).

Publications 1.3k Datasets 392.5k Experiments 13

System / cell line: scrna-seq ✕ Assay: genomic ✕ Clear

Single-Cell Transcriptomic Landscape of Right-Sided Colon Cancer Reveals Cellular and Molecular Features of Metastatic Potential.

PMID 41898210 · PMC13024220 · Biomedicines · 2026 · 8 claims · 6 setups

Has reproduction · 71

RCC_LM tumors exhibit higher genomic instability (CNV score) than RCC_noM tumors

right-sided malignant epithelial types scrna-seq copy trajectory
Migratory Tumor Cells Cooperate with Cancer Associated Fibroblasts in Hormone Receptor-Positive and HER2-Negative Breast Cancer.

PMID 38892065 · PMC11172245 · International journal of molecular sciences · 2024 · 8 claims · 8 setups

Full-text index only

HR+/HER2-BC tumor epithelial cells comprise four single-cell-defined functional (SC-f) subtypes: migratory, secretory, proliferating, and dysfunctional.

hr+ epcam-sorted tumor tcga-brca droplet sidr-seq bulk
Stage- and cluster-specific regulation of chondrogenic gene programs by Sox9 in mouse embryonic limb buds.

PMID 41809054 · PMC12969044 · iScience · 2026 · 8 claims · 7 setups

Full-text index only

scRNA-seq across five limb bud stages identifies four Sox9-high populations (chondroprogenitors 1, 2, 3, and mature chondrocytes) with distinct temporal dynamics

forelimb scrna-seq cut&run embryo single-cell cut&run velocity
Temporal control of progenitor competence shapes maturation in GABAergic neuron development in mice.

PMID 40629142 · PMC12321585 · Nature neuroscience · 2025 · 8 claims · 8 setups

Has reproduction · 82

Ganglionic eminence (ventral) progenitors maintain stable differentiation competence throughout neurogenesis, generating a consistent set of postmitotic precursor states at all stages, unlike dorsal cortical progenitors whose differentiation competence changes gradually.

dlx5 progenitors sections cortical scrna-seq trackerseq flashtag
Redefinition of the toll-like receptor repertoire in Ciona robusta through genomic, structural, and expression analyses.

PMID 41568004 · PMC12816324 · Frontiers in cellular and infection microbiology · 2025 · 8 claims · 8 setups

Full-text index only

CiTLR13 is a redundant annotation of CiTLR1 (same genomic locus, >94% sequence identity), so it is not a distinct TLR gene

ciona six lrr tlr blastp domain nucleotide
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

Full-text index only

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
Chemically guided single-cell transcriptomics reveals sulfotransferase-mediated scaffold remodeling in securinine biosynthesis.

PMID 41577683 · PMC12929733 · Nature communications · 2026 · 8 claims · 8 setups

Full-text index only

FsMS is a ketoreductase that reduces premenisdaurilide to menisdaurilide

suffruticosa synthetic nicotiana pacbio single-cell d2o
A multi-omics features-based approach integrating immunogenicity and inflammation enhances immunotherapy benefit in clear cell renal cell carcinoma.

PMID 41640425 · PMC12864441 · Frontiers in cell and developmental biology · 2025 · 7 claims · 8 setups

Full-text index only

The TIs-ML multi-omics model predicts ICB response/survival in ccRCC with superior accuracy (AUC > 0.997) compared to single biomarkers like PD-L1 and TMB

autoimmune igan scrna-seq bulk bulk scrna-seq scissor-based
M(5)C-driven stabilization of SERPINB5 promotes cervical cancer progression and chemotherapy resistance.

PMID 41673397 · PMC12921336 · Cell death & disease · 2026 · 8 claims · 8 setups

Full-text index only

RNA m5C levels are globally and consistently elevated in cervical tumors compared to normal cervical tissue

cervical hela nsun2 bisulfite bulk spatial
Enhancing KLF15 activity in cardiomyocytes: a novel approach to prevent pathological reprogramming and fibrosis via nuclease-deficient dCas9VPR.

PMID 41771837 · PMC12953643 · Signal transduction and targeted therapy · 2026 · 8 claims · 8 setups

Full-text index only

KLF15 transcriptional activity shows the most significant change among TFs in pathological cardiomyocytes during progressive hypertrophic remodeling, reflecting less effective repression of disease-associated genes.

ventricular heart cardiomyocytes cardiomyocyte single-cell rt-qpcr bulk
Integrative CSF profiling identifies disease-specific immune responses in leptomeningeal disease.

PMID 41794040 · PMC13006398 · Cell reports. Medicine · 2026 · 8 claims · 8 setups

Full-text index only

CSF exhibits distinct, disease-specific immune landscapes across CNSL, BrMs, and GB-associated LMD

csf peripheral brain cell-free single-cell deep spatial
Genetic evidence supporting obesity as a risk factor for lung squamous cell carcinoma and the identification of MFAP1 as a shared genetic target.

PMID 41820721 · PMC13096280 · Discover oncology · 2026 · 8 claims · 8 setups

Full-text index only

BMI and LUSC show a significant positive genome-wide genetic correlation, robust to constrained-intercept sensitivity analysis and replicated by GNOVA.

gwas gtex scrna-seq ldsc gnova ρ-hess
Patient-derived orthotopic xenograft models recapitulate the peritoneal dissemination of pancreatic cancer and delineate its transcriptional and regulatory programs.

PMID 41673768 · PMC12998334 · Journal of experimental & clinical cancer research : CR · 2026 · 6 claims · 8 setups

Full-text index only

Organoids derived from malignant effusions of PDAC patients reproducibly generate peritoneal metastases after orthotopic implantation into the pancreas of immunodeficient mice

pdac organoids frozen pdox orthotopic single-nucleus single-cell

Experiments

Single-Cell Transcriptomic Landscape of Right-Sided Colon Cancer Reveals Cellular and Molecular Features of Metastatic Potential.

Migratory Tumor Cells Cooperate with Cancer Associated Fibroblasts in Hormone Receptor-Positive and HER2-Negative Breast Cancer.

Stage- and cluster-specific regulation of chondrogenic gene programs by Sox9 in mouse embryonic limb buds.

Temporal control of progenitor competence shapes maturation in GABAergic neuron development in mice.

Redefinition of the toll-like receptor repertoire in Ciona robusta through genomic, structural, and expression analyses.

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

Chemically guided single-cell transcriptomics reveals sulfotransferase-mediated scaffold remodeling in securinine biosynthesis.

A multi-omics features-based approach integrating immunogenicity and inflammation enhances immunotherapy benefit in clear cell renal cell carcinoma.

M(5)C-driven stabilization of SERPINB5 promotes cervical cancer progression and chemotherapy resistance.

Enhancing KLF15 activity in cardiomyocytes: a novel approach to prevent pathological reprogramming and fibrosis via nuclease-deficient dCas9VPR.

Integrative CSF profiling identifies disease-specific immune responses in leptomeningeal disease.

Genetic evidence supporting obesity as a risk factor for lung squamous cell carcinoma and the identification of MFAP1 as a shared genetic target.

Patient-derived orthotopic xenograft models recapitulate the peritoneal dissemination of pancreatic cancer and delineate its transcriptional and regulatory programs.