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 263

System / cell line: reporter ✕ Clear

Systematic elucidation of genetic mechanisms underlying cholesterol uptake.

PMID 37228746 · PMC10203276 · Cell genomics · 2023 · 8 claims · 8 setups

Full-text index only

Genome-scale CRISPR-Cas9 knockout screening in HepG2 cells identifies 490 genes whose disruption alters LDL-C uptake

hepg2 depmap flow genome-scale individual
Segmental copy number amplifications are more stable than aneuploidies in the absence of selection.

PMID 41968576 · PMC13107562 · Molecular biology and evolution · 2026 · 8 claims · 6 setups

Full-text index only

Segmental amplifications are stable in the absence of selection, whereas aneuploidies are rapidly lost and revert to single-copy genotype

cerevisiae computational long-term pairwise content
Aryl Hydrocarbon Receptor Ligands Drive Pancreatic Cancer Initiation and Progression through Protumorigenic T-cell Polarization.

PMID 40905825 · PMC12793834 · Cancer discovery · 2026 · 8 claims · 8 setups

Full-text index only

AHR ligands (cigarette smoke extract and TCDD) promote PDAC tumor growth in a syngeneic orthotopic mouse model

pdac naïve il22 orthotopic naïve western
A Plastic EMP1+ to LGR5+ Cell State Conversion as a Bypass to KRASG12D Pharmacologic Inhibition in Metastatic Colorectal Cancer.

PMID 41128661 · PMC12877754 · Cancer discovery · 2026 · 8 claims · 8 setups

Full-text index only

RMC-9945 exerts durable antitumor activity in early-stage liver metastasis but has diminished therapeutic effect in advanced metastatic disease

aktp colorectal drug single-cell rnascope
Global atlas of enhancer-promoter interactome in cotton genome revealed by profiling RNA-RNA spatial interactions.

PMID 41484656 · PMC12857045 · Genome biology · 2026 · 8 claims · 8 setups

Full-text index only

pRIC-seq, an adaptation of RIC-seq for plants, enables genome-wide mapping of RNA-RNA spatial interactions in diploid and tetraploid cotton

diploid tetraploid cotton nicotiana pric-seq gro-cap chip-seq
A Double-Negative Prostate Cancer Subtype Is Vulnerable to SWI/SNF-Targeting Degrader Molecules.

PMID 41534092 · PMC13044530 · Cancer research · 2026 · 8 claims · 8 setups

Full-text index only

SWI/SNF-targeting PROTAC treatment reduces viability of CRPC-WNT (AR-negative) cell lines and organoids, not just AR-dependent CRPC

prostate nsg formalin-fixed patient-derived viability western xenograft
Endothelial stem cells of the retinal vasculature reside in the optic nerve.

PMID 41577708 · PMC12830651 · Nature communications · 2026 · 8 claims · 8 setups

Full-text index only

CD157+CD201+ endothelial stem cells (VESCs) reside predominantly in the optic nerve and supply endothelial cells to the retina

cd45negcd31+ sorted retina procr[cd201]-creert2 flow colony-forming flat-mount
Integrative miRNA-mRNA Network and Molecular Dynamics-Based Identification of Therapeutic Candidates for Paroxysmal Nocturnal Hemoglobinuria.

PMID 41599741 · PMC12845513 · Pharmaceuticals (Basel, Switzerland) · 2026 · 8 claims · 8 setups

Full-text index only

A PIGA-knockout (PIGA-KO) THP-1 cell model was successfully established using CRISPR/Cas9 RNP technology as a PNH model

thp-1 literature-validated pnh cxcl8 crispr rt-qpcr bulk
The evolution of gene regulation in mammalian cerebellum development.

PMID 41610256 · PMC7618896 · Science (New York, N.Y.) · 2026 · 8 claims · 8 setups

Full-text index only

Combined single-nucleus RNA-seq and ATAC-seq atlases of cerebellum development were generated/integrated across six mammals (human, bonobo, macaque, marmoset, mouse, opossum)

developing opossum marmoset cultures single-nucleus bulk gene
Mosaic partial epidermal reprogramming remodels neighbors and niches to refine skin homeostasis and repair.

PMID 41617708 · PMC12960685 · Nature communications · 2026 · 8 claims · 8 setups

Full-text index only

A genetically engineered mouse model (Krt14-CreER; LSL-rtTA-EGFP; TetO-OSKM-mCherry, 'Epi-iOSKM') enables transient, reversible, mosaic OSKM expression in interfollicular epidermal cells without inducing pluripotency or teratoma risk

epidermis sorted epidermal ife immunostaining single-cell pseudotime
Pharmacological perturbation of splicing elicits SMG1 reduction: Implications for cancer therapy.

PMID 41623476 · PMC12857400 · iScience · 2026 · 7 claims · 12 setups

Full-text index only

Splicing-modulatory drugs MS023 and indisulam act as inadvertent NMD inhibitors by downregulating SMG1 protein levels

4t1 tumor-draining arst panc02 mts tumor ifn-γ
Nanog mediated control of TBX3-GATA6 circuitry in primitive endoderm differentiation of mESCs.

PMID 41629627 · PMC12979688 · EMBO reports · 2026 · 8 claims · 8 setups

Full-text index only

NANOG partners with TBX3 and the PRC2 complex to maintain ESC identity by silencing PrE genes through distal enhancers

rcnβh escs qpcr rna-seq chip-seq
Antigen specificity of clonally enriched CD8(+) T cells in multiple sclerosis.

PMID 41644766 · PMC12956596 · Nature immunology · 2026 · 8 claims · 7 setups

Full-text index only

A subset of 23 highly expanded, CSF-enriched CD8+ T cell clonotypes exists predominantly in the CSF of the MS/CIS cohort.

paired cd8+ cd4+ csf single-cell differential pseudotime
BMP and NODAL paracrine signalling regulate the totipotent-like cell state in embryonic stem cells.

PMID 41660012 · PMC12876259 · Frontiers in cell and developmental biology · 2025 · 7 claims · 8 setups

Full-text index only

BMP and NODAL (TGF-β) paracrine signalling are key routes of intercellular communication that respectively enhance or diminish the totipotent-like cell (TLC) state in mouse ESCs

escs esc scrna-seq cellchat differential
Single-cell transcriptomic analysis of plant quiescent center by third-generation sequencing reveals developmental trajectories.

PMID 41664205 · PMC12990480 · Genome biology · 2026 · 8 claims · 8 setups

Full-text index only

Developed an improved protoplasting/hand-picking protocol enabling isolation of intact QC cells for single-cell long-read RNA sequencing (SCAN-seq)

arabidopsis single-cell rt-pcr agarose
Base barrier cells provide compartmentalization of choroid plexus, brain and CSF.

PMID 41680326 · PMC12971494 · Nature neuroscience · 2026 · 8 claims · 8 setups

Full-text index only

A distinct fibroblast population, ChP base barrier cells (BBCs, formerly type II fibroblasts), exists at the base of the choroid plexus, separate from ChP stromal (type I) fibroblasts

lateral brain mesp1-cre chp scrna-seq multiplex immunofluorescence
ASCL1 promotes nuclear shrinkage in transdifferentiation by suppressing NUP37.

PMID 41759523 · PMC12985393 · Stem cell reports · 2026 · 7 claims · 8 setups

Full-text index only

ASCL1-mediated transdifferentiation (AMp) of human fibroblasts to induced neurons causes marked nuclear shrinkage while cell size remains unchanged

mrc5 ag22056 ipsc-derived embryonic immunofluorescence single-cell rt-qpcr
Vγ1 γδ T cells steer airway macrophages toward a profibrotic response in an autochthonous lung cancer mouse model.

PMID 41779856 · PMC12959402 · Science advances · 2026 · 7 claims · 6 setups

Full-text index only

Lung tumors drive expansion of both CD27+ and CD27- pulmonary γδ T cells, which acquire distinct spatial and phenotypic changes in the tumor microenvironment

spc-cre+ microdissected sorted merged flow confocal single-cell
Functional genomics analysis of developing zebrafish and human endoderm reveals highly conserved cis-regulatory modules acting during vertebrate organogenesis.

PMID 41781333 · PMC7619044 · Genome research · 2026 · 8 claims · 8 setups

Full-text index only

There are few endoderm-specific CRMs; many CRMs governing pancreas development also likely act within the nervous system

zebrafish embryonic atac-seq bulk facs
HIF3A-mediated aberrant activation of TXNIP promotes Alzheimer's disease progression.

PMID 41807716 · PMC13096512 · Scientific reports · 2026 · 8 claims · 8 setups

Full-text index only

OS activity is significantly elevated in AD and shows pronounced heterogeneity across brain cell types

entorhinal brain middle c57bl scrna-seq bulk animal

Experiments

Systematic elucidation of genetic mechanisms underlying cholesterol uptake.

Segmental copy number amplifications are more stable than aneuploidies in the absence of selection.

Aryl Hydrocarbon Receptor Ligands Drive Pancreatic Cancer Initiation and Progression through Protumorigenic T-cell Polarization.

A Plastic EMP1+ to LGR5+ Cell State Conversion as a Bypass to KRASG12D Pharmacologic Inhibition in Metastatic Colorectal Cancer.

Global atlas of enhancer-promoter interactome in cotton genome revealed by profiling RNA-RNA spatial interactions.

A Double-Negative Prostate Cancer Subtype Is Vulnerable to SWI/SNF-Targeting Degrader Molecules.

Endothelial stem cells of the retinal vasculature reside in the optic nerve.

Integrative miRNA-mRNA Network and Molecular Dynamics-Based Identification of Therapeutic Candidates for Paroxysmal Nocturnal Hemoglobinuria.

The evolution of gene regulation in mammalian cerebellum development.

Mosaic partial epidermal reprogramming remodels neighbors and niches to refine skin homeostasis and repair.

Pharmacological perturbation of splicing elicits SMG1 reduction: Implications for cancer therapy.

Nanog mediated control of TBX3-GATA6 circuitry in primitive endoderm differentiation of mESCs.

Antigen specificity of clonally enriched CD8(+) T cells in multiple sclerosis.

BMP and NODAL paracrine signalling regulate the totipotent-like cell state in embryonic stem cells.

Single-cell transcriptomic analysis of plant quiescent center by third-generation sequencing reveals developmental trajectories.

Base barrier cells provide compartmentalization of choroid plexus, brain and CSF.

ASCL1 promotes nuclear shrinkage in transdifferentiation by suppressing NUP37.

Vγ1 γδ T cells steer airway macrophages toward a profibrotic response in an autochthonous lung cancer mouse model.

Functional genomics analysis of developing zebrafish and human endoderm reveals highly conserved cis-regulatory modules acting during vertebrate organogenesis.

HIF3A-mediated aberrant activation of TXNIP promotes Alzheimer's disease progression.