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).
-
Full-text index only
Integrating single-cell and single-nucleus datasets improves bulk RNA-seq deconvolution.
PMID 41895263 · PMC13106970 · Cell reports methods · 2026 · 8 claims · 5 setups
scRNA-seq references yield significantly higher Pearson correlation and lower RMSE than snRNA-seq references for deconvolution across all four tissue datasets
-
Full-text index only
Cross-tissue atlas of mucosa-associated lymphoid tissue lymphomas reveals intratumoral heterogeneity and microenvironmental subtypes.
PMID 42066772 · PMC13198276 · Cell reports. Medicine · 2026 · 8 claims · 8 setups
Integrative bulk, single-nucleus, and spatial RNA-seq analysis identifies three LME subtypes in MALT lymphoma: LME1 (mesenchymal), LME2 (inflammatory), and LME3 (depleted).
-
Full-text index only
Single nuclei and spatial profiling of sacrococcygeal teratomas reveals cellular composition and X inactivation heterogeneity.
PMID 41565739 · PMC12949016 · NPJ precision oncology · 2026 · 7 claims · 4 setups
snRNA-seq and spatial transcriptomics of eight SCTs identify five broad cell lineages (neuroectoderm, epithelia, stroma, endothelia, immune) resolved into 26 transcriptionally distinct subtypes
-
Full-text index only
Comparative multi-omic analysis reveals conserved and derived mechanisms of fin and limb regeneration.
PMID 41571662 · PMC12923738 · Nature communications · 2026 · 8 claims · 8 setups
Fin and limb regeneration share conserved proximal and distal blastema territory markers, DNA damage repair activation, hif1a-mediated hypoxia response, and sequential pro-/anti-inflammatory gene programs.
-
Has reproduction · 84
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
MYOD1 L122R-mutant SRMS tumors contain three coexisting, conserved cell states (progenitor, transition, differentiated) reflecting aberrant myogenic differentiation
-
Has reproduction · 10
Gli1-expressing stromal cells are highly reparative precursors of long-lived chondroprogenitors in the fetal murine limb.
PMID 41253754 · PMC12627582 · Nature communications · 2025 · 8 claims · 8 setups
Gli1+ fetal cells are the precursors of postnatal long-lived chondroprogenitors (LLCPs) in the growth plate
-
Full-text index only
Mouse placentae generated by in vitro fertilization exhibit altered gene expression, activated hypoxia responses, and reduced fitness†.
PMID 40874534 · PMC12808545 · Biology of reproduction · 2026 · 6 claims · 6 setups
IVF-conceived mouse placentae exhibit global and cell type–specific gene expression differences compared to FB placentae
-
Full-text index only
Comprehensive cellular analysis with single-nucleus RNA-seq of archived PAXgene whole blood samples.
PMID 41844163 · PMC13030975 · Cell reports methods · 2026 · 8 claims · 7 setups
Cell lysis (CL) nuclei isolation yields substantially more nuclei and less biased immune cell proportions than mechanical separation (MS)
-
Full-text index only
Single-cell multiomics uncovers an endothelial mechanosensitive PIEZO1-IL-33 axis driving pulmonary fibrosis.
PMID 41862476 · PMC13004862 · Nature communications · 2026 · 7 claims · 8 setups
Mechanical stress (MS) signaling is significantly elevated in endothelial cells (ECs) from IPF patients and correlates with fibrosis severity and lung function decline
-
Full-text index only
A longitudinal single-cell and spatial multiomic atlas of pediatric high-grade glioma.
PMID 42030938 · PMC13198283 · Cell reports. Medicine · 2026 · 8 claims · 8 setups
A multiomic (snRNA-seq, snATAC-seq, WGS, CODEX) atlas defines a core set of pHGG neoplastic cell states shared across molecular subtypes
-
Full-text index only
Single-cell and spatial transcriptome analysis reveals the potential therapeutic targets for testicular sex cord-stromal cell tumor.
PMID 42057139 · PMC13130799 · Biomarker research · 2026 · 8 claims · 8 setups
Tumor areas of TSCST show significantly low expression of immune cell genes, indicating an immune-cold tumor microenvironment
-
Full-text index only
Transcriptomic study of WSSV infection in Litopenaeus vannamei lymphoid organ via single nuclei RNA sequencing.
PMID 42044139 · PMC13119866 · PloS one · 2026 · 6 claims · 3 setups
A novel nuclei isolation protocol optimized for shrimp tissues was developed to enable single nuclei RNA-sequencing (snRNA-seq) of the lymphoid organ.
-
Full-text index only
Single-nucleus multiomic profiling of the aging mouse substantia nigra reveals conserved gene alterations linked to Parkinson's disease.
PMID 41781332 · PMC13138337 · Genome research · 2026 · 8 claims · 7 setups
Single-nucleus multiome (RNA+ATAC) sequencing of mouse substantia nigra across four age stages (2, 6, 12, 18 months) yields a 40,125-cell atlas spanning 27 cell subclasses
-
Has reproduction · 95
Single-cell transcriptomics and chromatin accessibility profiling elucidate the kidney-protective mechanism of mineralocorticoid receptor antagonists.
PMID 37906287 · PMC10760974 · The Journal of clinical investigation · 2024 · 8 claims · 8 setups
Mineralocorticoid effects are established through open chromatin and target gene expression primarily in principal and connecting tubule cells, and to a lesser extent in distal convoluted tubule cells
-
Has reproduction · 75
Single-cell dissection of chronic lung allograft dysfunction reveals convergent and distinct fibrotic mechanisms.
PMID 41122970 · PMC12581678 · JCI insight · 2025 · 8 claims · 8 setups
CLAD exhibits specific cellular subsets including Fibro.AT2 cells, exhausted CD8+ T cells, and superactivated macrophages
-
Full-text index only
Integrative transcriptome-wide association analyses reveal PRKCG-linked GABAergic dysfunction in Fragile X-associated tremor/ataxia syndrome.
PMID 41507195 · PMC12881518 · Nature communications · 2026 · 8 claims · 8 setups
A multi-omics strategy combined with TWAS reveals brain-region-specific molecular signatures and striking gene dysregulation concentrated in inhibitory neurons in an FXTAS mouse model.
-
Has reproduction · 100
Lipopolysaccharide distinctively alters human microglia transcriptomes to resemble microglia from Alzheimer's disease mouse models.
PMID 36254682 · PMC9612871 · Disease models & mechanisms · 2022 · 8 claims · 8 setups
iPSC-microglia show a shared core transcriptional response to ATPγS and to LPS+IFN-γ, suggesting a convergent mechanism of action
-
Has reproduction · 63
Transcriptomics, regulatory syntax, and enhancer identification in mesoderm-induced ESCs at single-cell resolution.
PMID 35977485 · PMC9644345 · Cell reports · 2022 · 8 claims · 8 setups
Bmp4 treatment instructs ESCs to downregulate pluripotency genes and upregulate genes associated with formative pluripotency and fate specification
-
Has reproduction · 93
Single-nucleus mRNA-sequencing reveals dynamics of lipogenic and thermogenic adipocyte populations in murine brown adipose tissue in response to cold exposure.
PMID 40945691 · PMC12506565 · Molecular metabolism · 2025 · 8 claims · 8 setups
snRNA-seq of murine BAT identifies seven distinct brown adipocyte subtypes with distinct metabolic profiles, part of a 21-cell-type atlas.
-
Full-text index only
Single-cell atlas of the developing Down syndrome brain cortex.
PMID 41545595 · PMC13004680 · Nature medicine · 2026 · 8 claims · 8 setups
RORB/FOXP1-expressing L4-like excitatory neurons are subtype-specifically and dramatically reduced in Down syndrome fetal cortex, especially at later stages (PCW16-20)