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 49

System / cell line: snrna ✕ Clear

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

Has reproduction · 95

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

kidney live blood snrna-seq snatac-seq bulk
Multi-omic identification of perineurial hyperplasia and lipid-associated nerve macrophages in human polyneuropathies.

PMID 40849297 · PMC12375038 · Nature communications · 2025 · 8 claims · 8 setups

Has reproduction · 90

Multi-omic profiling (snRNA-seq + spatial transcriptomics) of human sural nerves identifies novel cell type markers (MLIP in mySC; GRIK3, PRIMA1 in nmSC; CXCL14 in periC) not previously described in rodent or human literature

sural peripheral snrna-seq nerve single-nucleus subcellular situ
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

Has reproduction · 93

snRNA-seq of murine BAT identifies seven distinct brown adipocyte subtypes with distinct metabolic profiles, part of a 21-cell-type atlas.

interscapular ibat bat single-nucleus qpcr western
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
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

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snRNA-seq and spatial transcriptomics of eight SCTs identify five broad cell lineages (neuroectoderm, epithelia, stroma, endothelia, immune) resolved into 26 transcriptionally distinct subtypes

postnatal prenatal aggregated single-nucleus single-cell spatial
Comparative multi-omic analysis reveals conserved and derived mechanisms of fin and limb regeneration.

PMID 41571662 · PMC12923738 · Nature communications · 2026 · 8 claims · 8 setups

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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.

polypterus axolotl zebrafish regenerating single-nucleus spatial single-cell
Spatial transcriptomics reveals altered communities and drivers of aberrant epithelia and pro-fibrotic fibroblasts in interstitial lung diseases.

PMID 41576947 · PMC12985369 · Cell genomics · 2026 · 7 claims · 7 setups

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snRNA-seq census of 227,680 nuclei across 48 cell types reveals altered cellular states and compositional rewiring of the distal lung in ILD

frozen lung flash-frozen spatial single-nucleus scrna-seq 10x
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
The identification of a Distinct Astrocyte Subtype that Diminishes in Alzheimer's Disease.

PMID 38502590 · PMC11567244 · Aging and disease · 2024 · 7 claims · 7 setups

Has reproduction · 57

A distinct astrocyte subpopulation marked by low GFAP, AQP4+, and CD63+ expression exists in normal brain and is functionally enriched for Aβ clearance and tau protein binding

hippocampus prefrontal astrocyte frontal single-nuclei gene cell-cell
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

Has reproduction · 10

Gli1+ fetal cells are the precursors of postnatal long-lived chondroprogenitors (LLCPs) in the growth plate

fetal left-cart-p21 gli1-creer cartilage single-nuclei scenic bulk
U7 snRNAs: a computational survey.

PMID 18267300 · PMC5054213 · Genomics, proteomics & bioinformatics · 2007 · 8 claims · 6 setups

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A computational (BLAST-based) survey identified bona fide U7 snRNA genes with characteristic upstream promoter elements (PSE) across most vertebrate genomes examined, plus numerous pseudogenes.

mammalian drosophilid aligned basal blast sequence consensus
Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors.

PMID 17537823 · PMC1919476 · Nucleic acids research · 2007 · 6 claims · 8 setups

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Endogenous nuclear pre-mRNA processing complexes (supraspliceosomes) were purified at preparative scale from human HeLa cells and chicken DT40 pre-B cells for compositional analysis

hela chicken supraspliceosome extracts glycerol tandem mass
Single-nucleus multiome analysis in the human prefrontal cortex identifies gene expression and cis-regulatory elements associated with aging.

PMID 41832957 · PMC13137218 · Cell reports · 2026 · 8 claims · 8 setups

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Generated a single-nucleus multiome (snATAC + gene expression) dataset from 357 human dorsolateral prefrontal cortex samples (ages 15-100, European and African admixed ancestry), yielding over 1.5 million cells as a public resource.

postmortem million+ pfc each single-nucleus umap pseudobulk
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

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IVF-conceived mouse placentae exhibit global and cell type–specific gene expression differences compared to FB placentae

e12.5 differentially trophoblast placenta single-nucleus pseudobulk pathway
Transcription and potential functions of a novel XIST isoform in male peripheral glia.

PMID 41386982 · PMC12863056 · Genome research · 2026 · 8 claims · 8 setups

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XIST is robustly expressed in male peripheral glia, particularly nonmyelinating Schwann cells, across human heart and skeletal muscle tissue.

heart skeletal atlas peripheral scrna-seq aggregated scatac-seq
Single-cell resolution of an open chromatin signature in persister tumor cells.

PMID 41485222 · PMC12978573 · Cell reports · 2026 · 8 claims · 8 setups

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Single-nucleus multi-omic (snRNA-seq + snATAC-seq) profiling of fallopian tube, treatment-naive, and NACT-treated HGSOC tissue identifies a persister cell signature (PCS) defining the chemotherapy-tolerant state.

non-malignant same epithelial tumor single-nucleus mitochondrial copy-number
Cellular insights into transposable elements in Alzheimer's disease.

PMID 41573740 · PMC12819740 · Frontiers in molecular biosciences · 2025 · 8 claims · 5 setups

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508 TE loci are differentially expressed in AD brain, with the large majority (84.3%) upregulated, indicating widespread TE activation

postmortem brain genome genes single-nucleus atac-seq pseudobulk
Single-Cell Transcriptomic Atlases of Camels and Cattle Unravel Molecular Evolution of Digestive and Metabolic Systems.

PMID 41632085 · PMC13067795 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 7 setups

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Generated single-cell/nucleus transcriptomic atlases of camels and cattle across 54 tissues, identifying 124 cell types (78 in camels, 106 in cattle, 59 shared)

camel bovine structural orthologous scrna-seq spatial scenic
Indigenous gut microbes modulate neural cell state and neurodegenerative disease susceptibility.

PMID 41638211 · PMC13091097 · Cell systems · 2026 · 8 claims · 7 setups

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A complex, intact gut microbiome is necessary for the steady-state transcriptional landscape of all major brain-resident cell types, with myelinating oligodendrocytes and immune cells showing the largest microbiome-dependent transcriptional response.

hippocampus cd11b+ intestinal brain single-nucleus bulk multiplex
Systematic evaluation of single-cell multimodal data integration enhances cell type resolution and discovery of clinically relevant states in complex tissues.

PMID 41821037 · PMC12983708 · Genome biology · 2026 · 8 claims · 8 setups

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Horizontal integration of scRNA-seq and snRNA-seq improves cell-type identification

renal kidney pbmc heart scrna-seq snrna-seq snatac-seq

Experiments

Single-cell transcriptomics and chromatin accessibility profiling elucidate the kidney-protective mechanism of mineralocorticoid receptor antagonists.

Multi-omic identification of perineurial hyperplasia and lipid-associated nerve macrophages in human polyneuropathies.

Single-nucleus mRNA-sequencing reveals dynamics of lipogenic and thermogenic adipocyte populations in murine brown adipose tissue in response to cold exposure.

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

Single nuclei and spatial profiling of sacrococcygeal teratomas reveals cellular composition and X inactivation heterogeneity.

Comparative multi-omic analysis reveals conserved and derived mechanisms of fin and limb regeneration.

Spatial transcriptomics reveals altered communities and drivers of aberrant epithelia and pro-fibrotic fibroblasts in interstitial lung diseases.

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

The identification of a Distinct Astrocyte Subtype that Diminishes in Alzheimer's Disease.

Gli1-expressing stromal cells are highly reparative precursors of long-lived chondroprogenitors in the fetal murine limb.

U7 snRNAs: a computational survey.

Proteomic analysis of in vivo-assembled pre-mRNA splicing complexes expands the catalog of participating factors.

Single-nucleus multiome analysis in the human prefrontal cortex identifies gene expression and cis-regulatory elements associated with aging.

Mouse placentae generated by in vitro fertilization exhibit altered gene expression, activated hypoxia responses, and reduced fitness†.

Transcription and potential functions of a novel XIST isoform in male peripheral glia.

Single-cell resolution of an open chromatin signature in persister tumor cells.

Cellular insights into transposable elements in Alzheimer's disease.

Single-Cell Transcriptomic Atlases of Camels and Cattle Unravel Molecular Evolution of Digestive and Metabolic Systems.

Indigenous gut microbes modulate neural cell state and neurodegenerative disease susceptibility.

Systematic evaluation of single-cell multimodal data integration enhances cell type resolution and discovery of clinically relevant states in complex tissues.