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 255

System / cell line: reporter ✕ Clear

A single-nucleotide enhancer mutation overrides chromosomal sex to drive XX male development.

PMID 41957362 · PMC13066550 · Nature communications · 2026 · 8 claims · 7 setups

Full-text index only

A 3 bp deletion or a 1 bp insertion in the Enh13 SOX9 binding site causes complete XX female-to-male sex reversal in adult homozygous mice

c57bl6 6-week-old 6-week e12.5 crispr-cas9 gross immunostaining
RANKL inhibits macrophage proinflammatory Toll-like receptor 2 and 4 signaling and impairs killing of intracellular bacteria.

PMID 42177796 · PMC13198865 · ImmunoHorizons · 2026 · 8 claims · 8 setups

Full-text index only

Prior RANKL exposure increases intracellular Salmonella Typhimurium (STm) burden in mouse and human macrophages

bone bmdms raw-dual splenic bacterial viability sequencing
ZFHX4 is necessary for dopaminergic neuron differentiation and controls cell cycle by regulating LIN28A.

PMID 42208531 · PMC13261933 · Stem cell reports · 2026 · 8 claims · 8 setups

Full-text index only

ZFHX4 is a super-enhancer-controlled transcription factor induced during mDAN specification

ipsc-derived smnpcs postmortem cut&tag bulk shrna
Stress Responsive bZIP Transcription Factors ATF4 and BACH1 Cooperate With MAF-Family bZIP Protein NRL to Fine-Tune Rod Photoreceptor Gene Expression.

PMID 42246540 · PMC13249099 · Investigative ophthalmology & visual science · 2026 · 8 claims · 7 setups

Full-text index only

ATF4 and BACH1 are identified as bZIP protein interactors of NRL

y2hgold hek293 p28 flow-sorted yeast co-immunoprecipitation immunofluorescence
Dynamic and Ongoing De Novo L1 Retrotransposition Contributes to Genome Plasticity and Intrapatient Heterogeneity in Ovarian Cancer.

PMID 41223332 · PMC13055634 · Cancer research · 2026 · 8 claims · 5 setups

Full-text index only

HGSC tumors show high inter-patient heterogeneity in total de novo L1 insertion burden.

hgsc pa-1 long-distance whole-genome validation
Vitamin C Conditioning Generates Tumor-Targeting CAR T Cells with Superior Cytotoxicity and Fitness in a Posttransplant Lymphoproliferative Disorder Tumor Model.

PMID 41416402 · PMC13136873 · Molecular cancer therapeutics · 2026 · 8 claims · 8 setups

Full-text index only

VitC conditioning enhances transduction efficiency and proliferative capacity, yielding a higher yield of CD4+ and CD8+ CAR19-Ts

cd3+ je6-1 car19-ts coculture flow nf-κb cytotoxicity
Inherited resilience to clonal hematopoiesis by modifying stem cell RNA regulation.

PMID 41477881 · PMC12850507 · Science (New York, N.Y.) · 2026 · 8 claims · 8 setups

Full-text index only

A haplotype at the 17q22 locus, tagged by the noncoding variant rs17834140-T, is a causal protective variant against CHIP and myeloid malignancies

population hspcs cd34+cd45ra-cd90+ heterozygous gwas atac-seq crispr
Bidirectional CRISPR screens decode a GLIS3-dependent fibrotic cell circuit.

PMID 41501466 · PMC12820784 · Nature · 2026 · 8 claims · 8 setups

Full-text index only

Inflammation-associated fibroblasts (IAFs), induced by proinflammatory FCN1+IL1B+ macrophages, produce profibrotic IL-11 and drive fibrosis in IBD

intestinal colon pdgfra+ colonic scrna-seq xenium masson's
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

Full-text index only

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
DOT1L activity limits transcription elongation velocity and favors RNAPII pausing to facilitate mutagenesis by AID.

PMID 41526379 · PMC12905297 · Nature communications · 2026 · 8 claims · 8 setups

Full-text index only

DOT1L and super elongation complex (SEC) components are proximal to nuclear AID by BioID

flp-in ch12f3 dot1l-deficient splenic bioid shrna rt-qpcr
Integrated multi-omic atlas reveals the hierarchy of spatiotemporal regulatory networks of mouse gastrulation.

PMID 41526381 · PMC12902073 · Nature communications · 2026 · 8 claims · 8 setups

Full-text index only

BioCRE, a novel bi-orientation regression algorithm, more accurately links genes to candidate cis-regulatory elements (CREs) than existing tools Signac and ArchR

gastrulating gastrula gold-standard embryo single-cell computational promoter
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

Full-text index only

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
Differentiation in the human urothelia is defined by distinct alternative polyadenylation.

PMID 41533515 · PMC12937501 · Cell reports · 2026 · 8 claims · 8 setups

Full-text index only

APA introduces a major layer of transcriptomic diversity during urothelial differentiation, largely independent of changes in mRNA levels

urothelial urothelial-specific ureter hek293t single-cell poly fluorescence
Dynamics of lung-infiltrating virus-specific T cells associated with age-dependent SARS-CoV-2 pneumonia severity.

PMID 41533733 · PMC12829949 · PLoS pathogens · 2026 · 8 claims · 8 setups

Full-text index only

Aged Nr4a3-Tocky mice develop more severe pneumonia and delayed body weight recovery after SARS-CoV-2 infection than adult mice

nr4a3-tocky bronchoalveolar lung left viral histopathology immunohistochemistry
Critical role for a high-plasticity cell state in lung cancer.

PMID 41565826 · PMC12960256 · Nature · 2026 · 8 claims · 8 setups

Full-text index only

The HPCS is a transcriptionally distinct cancer cell state that functions as a hub for reciprocal transitions between other cancer cell states

autochthonous kpfrt gfp+ sorted single-cell flow immunofluorescence
Architectural and evolutionary features of TE-derived TSSs shape tissue-specific promoter activity in the human genome.

PMID 41620470 · PMC12963367 · Nature communications · 2026 · 8 claims · 8 setups

Full-text index only

A three-step RAMPAGE-based pipeline can systematically identify TE-derived transcription start sites (TSSs) genome-wide, distinguishing them from autonomous TE transcription and background noise.

biosamples same k562 genomic rampage rna-seq h3k4me3
A single microRNA miR-195 rescues the arrested B cell development induced by EBF1 deficiency.

PMID 41649478 · PMC12880805 · eLife · 2026 · 8 claims · 8 setups

Full-text index only

Mir195 transduction rescues Ebf1-deficient HPCs, inducing CD19 expression and a B-lineage gene expression program

wild-type ebf1 nog mir195 flow cdna engraftment
Systematic transcriptome analysis reveals the function of alternative promoters in hematopoietic lineages.

PMID 41650962 · PMC12985389 · Stem cell reports · 2026 · 8 claims · 8 setups

Full-text index only

Analysis of 532 RNA-seq datasets constructed a high-resolution promoter activity landscape across hematopoietic lineages

hematopoietic major monocytes candidate rna-seq h3k4me3 motif
Development of a potent monoclonal antibody for treatment of human metapneumovirus infections.

PMID 41680141 · PMC13013820 · Nature communications · 2026 · 8 claims · 8 setups

Full-text index only

4F11 is a highly potent neutralizing mAb against HMPV with in vitro and in vivo efficacy

splenocytes vero recombinant hmpv fluorescent plaque biolayer
Epigenetic profiling of hematopoietic stem cells from male mice identifies KDR and PU.1 as regulators of aging transcriptome and caloric restriction response.

PMID 41720793 · PMC13035812 · Nature communications · 2026 · 8 claims · 8 setups

Full-text index only

Lifelong CR reduces white blood cell production and shifts hematopoiesis toward myeloid and thrombo-erythroid lineages while suppressing lymphoid output

peripheral sorted young aged complete flow bulk

Experiments

A single-nucleotide enhancer mutation overrides chromosomal sex to drive XX male development.

RANKL inhibits macrophage proinflammatory Toll-like receptor 2 and 4 signaling and impairs killing of intracellular bacteria.

ZFHX4 is necessary for dopaminergic neuron differentiation and controls cell cycle by regulating LIN28A.

Stress Responsive bZIP Transcription Factors ATF4 and BACH1 Cooperate With MAF-Family bZIP Protein NRL to Fine-Tune Rod Photoreceptor Gene Expression.

Dynamic and Ongoing De Novo L1 Retrotransposition Contributes to Genome Plasticity and Intrapatient Heterogeneity in Ovarian Cancer.

Vitamin C Conditioning Generates Tumor-Targeting CAR T Cells with Superior Cytotoxicity and Fitness in a Posttransplant Lymphoproliferative Disorder Tumor Model.

Inherited resilience to clonal hematopoiesis by modifying stem cell RNA regulation.

Bidirectional CRISPR screens decode a GLIS3-dependent fibrotic cell circuit.

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

DOT1L activity limits transcription elongation velocity and favors RNAPII pausing to facilitate mutagenesis by AID.

Integrated multi-omic atlas reveals the hierarchy of spatiotemporal regulatory networks of mouse gastrulation.

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

Differentiation in the human urothelia is defined by distinct alternative polyadenylation.

Dynamics of lung-infiltrating virus-specific T cells associated with age-dependent SARS-CoV-2 pneumonia severity.

Critical role for a high-plasticity cell state in lung cancer.

Architectural and evolutionary features of TE-derived TSSs shape tissue-specific promoter activity in the human genome.

A single microRNA miR-195 rescues the arrested B cell development induced by EBF1 deficiency.

Systematic transcriptome analysis reveals the function of alternative promoters in hematopoietic lineages.

Development of a potent monoclonal antibody for treatment of human metapneumovirus infections.

Epigenetic profiling of hematopoietic stem cells from male mice identifies KDR and PU.1 as regulators of aging transcriptome and caloric restriction response.