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 17

System / cell line: cell-type ✕ Assay: serum ✕ Clear

Immune profiling in a living human recipient of a gene-edited pig kidney.

PMID 41507576 · PMC12823403 · Nature medicine · 2026 · 8 claims · 8 setups

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Xenograft experienced early T cell-mediated rejection (Banff grade 2A) within 1 week post-transplant despite profound circulating T cell depletion, likely driven by subtherapeutic immunosuppression and residual CD8+ T cells in lymph nodes.

xenotransplant recipient kidney integrative single-cell flow
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
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
Berberine suppresses colon inflammation via integrated modulation of host metabolism, microbial ecology, and innate immune signaling.

PMID 41356191 · PMC12680593 · Theranostics · 2026 · 6 claims · 8 setups

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Berberine enhances energy metabolism (oxidative phosphorylation, ATP biosynthesis, fatty acid metabolism) in intestinal epithelial cells of DSS-induced mice, preserving normal physiological function

colon feces serum dss-induced single-cell targeted 16s
Single-cell multiome and enhancer connectome of human retinal pigment epithelium and choroid nominate causal variants in macular degeneration.

PMID 41528844 · PMC12971065 · Cell reports · 2026 · 8 claims · 8 setups

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Generated a single-cell gene expression and chromatin accessibility (multiome) atlas of human RPE and choroid from control and AMD eyes

rpe-choroid rpe arpe-19 scatac-seq joint h3k27ac activity-by-contact
LIMCH1-enriched extracellular vesicles promote vascular permeability in early-onset preeclampsia.

PMID 41604492 · PMC12851021 · Science advances · 2026 · 8 claims · 8 setups

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LIMCH1 is identified as an Eo-PE-associated EV protein via serum sEV proteomics combined with GEO placental transcriptome datasets

serum placenta jar huvecs lc-ms exoview nanoflow
Tumour-intrinsic features shape T cell differentiation through precursor to symptomatic multiple myeloma.

PMID 41644568 · PMC12982522 · Nature communications · 2026 · 8 claims · 6 setups

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MM is not characterized by T cell exhaustion but by antigen-driven terminal memory differentiation, unlike solid cancers

bone cd69+ cd8+ smm single-cell cite-seq gene
Single-cell dissection of regulated cell death dynamics in ovarian aging.

PMID 41689119 · PMC13005338 · Journal of ovarian research · 2026 · 8 claims · 8 setups

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The RCD landscape of ovarian aging had not previously been characterized at single-cell resolution

ovary serum scrna-seq bulk single-nucleus
Identification and Mechanisms of Osteocyte Subsets Involved in the Pathological Progression of Osteoporosis.

PMID 41250977 · PMC12850396 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 8 setups

Has reproduction · 57

Single-cell sequencing of mouse femurs identifies six distinct osteocyte subsets (C1-C6) after excluding contaminating erythroid clusters

femoral osteocyte dmp1-cre+ bhr-ocys single-cell monocle flow
Characterization of heterotypic interaction effects in vitro to deconvolute global gene expression profiles in cancer.

PMID 17868458 · PMC2375029 · Genome biology · 2007 · 8 claims · 8 setups

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Co-culture of certain breast cancer cell lines with stromal fibroblasts induces interferon-response genes (IRGs) in a subset of cancer cells

mda-mb231 epithelial breast early-stage cdna quantitative facs
Deciphering immune and cellular reprogramming during the progression from inflammatory bowel disease to colorectal cancer using multi-omics single-cell and spatial transcriptomics.

PMID 42001187 · PMC13122952 · Journal of translational medicine · 2026 · 8 claims · 5 setups

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CEACAM5 is consistently upregulated across Crohn's disease and ulcerative colitis samples and links epithelial activation in IBD to tumorigenic processes in CRC

intestinal colorectal single-cell serum bulk single-cell spatial
Human Proteinpedia: a unified discovery resource for proteomics research.

PMID 18948298 · PMC2686511 · Nucleic acids research · 2009 · 8 claims · 8 setups

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Human Proteinpedia is a community portal using a distributed annotation system (DAS) to share both published and unpublished human proteomic data

proteins tissues plasma expressing tandem immunohistochemistry mass
Annexin A13 Protects Against Acute Kidney Injury by Inactivating TGF-β/Smad3 Signaling.

PMID 41486854 · PMC12915081 · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026 · 8 claims · 8 setups

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ANXA13 is selectively downregulated in the kidneys of AKI patients and IRI- or cisplatin-induced AKI mice, primarily in proximal tubular cells

kidney aki renal hek293t rna-seq immunohistochemistry serum
Alternative polyadenylation mediated the downregulation of lysophosphatidylglycerol acyltransferase 1 in metabolic dysfunction-associated steatotic liver disease.

PMID 41507908 · PMC12879358 · Lipids in health and disease · 2026 · 8 claims · 8 setups

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Early hepatocyte-specific APA remodeling, characterized by 3' UTR lengthening of metabolism-related genes (especially LPGAT1), occurs in MASLD and is established before fibrosis progression

liver hepg2 293t serum bulk single-cell oil
Loss of fungal sensing exacerbates liver injury in a murine model of MASLD.

PMID 41805789 · PMC13135407 · JCI insight · 2026 · 8 claims · 8 setups

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Patients with advanced liver fibrosis exhibit distinct gut mycobiota profiles, with the genus Penicillium notably reduced in severe fibrosis

fecal wild-type gut card9 16s random diet-induced
Increased IL4I1 expression predicts poor survival and modulates the immune microenvironment in acute myeloid leukemia.

PMID 41680858 · PMC12910993 · Journal of translational medicine · 2026 · 8 claims · 8 setups

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IL4I1 mRNA expression is significantly elevated in AML compared to normal controls

tcga-laml bone thp-1-derived thp-1 bulk kaplan-meier deg
Cross-ancestry genome-wide association studies of liver function biomarkers uncover pleiotropic variants, systemic disease links and therapeutic targets.

PMID 41689074 · PMC13005531 · Genome medicine · 2026 · 8 claims · 8 setups

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5,507 lead signals (P<5x10^-9) were identified for seven LFQBs across ancestries, including 210 novel loci

hope biobank combined cross-ancestry gwas cross-ancestry functional-informed

Experiments

Immune profiling in a living human recipient of a gene-edited pig kidney.

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

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

Berberine suppresses colon inflammation via integrated modulation of host metabolism, microbial ecology, and innate immune signaling.

Single-cell multiome and enhancer connectome of human retinal pigment epithelium and choroid nominate causal variants in macular degeneration.

LIMCH1-enriched extracellular vesicles promote vascular permeability in early-onset preeclampsia.

Tumour-intrinsic features shape T cell differentiation through precursor to symptomatic multiple myeloma.

Single-cell dissection of regulated cell death dynamics in ovarian aging.

Identification and Mechanisms of Osteocyte Subsets Involved in the Pathological Progression of Osteoporosis.

Characterization of heterotypic interaction effects in vitro to deconvolute global gene expression profiles in cancer.

Deciphering immune and cellular reprogramming during the progression from inflammatory bowel disease to colorectal cancer using multi-omics single-cell and spatial transcriptomics.

Human Proteinpedia: a unified discovery resource for proteomics research.

Annexin A13 Protects Against Acute Kidney Injury by Inactivating TGF-β/Smad3 Signaling.

Alternative polyadenylation mediated the downregulation of lysophosphatidylglycerol acyltransferase 1 in metabolic dysfunction-associated steatotic liver disease.

Loss of fungal sensing exacerbates liver injury in a murine model of MASLD.

Increased IL4I1 expression predicts poor survival and modulates the immune microenvironment in acute myeloid leukemia.

Cross-ancestry genome-wide association studies of liver function biomarkers uncover pleiotropic variants, systemic disease links and therapeutic targets.