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 13

System / cell line: developmental ✕ Assay: ligand-receptor ✕ Clear

Pan-Cancer Single-Cell RNA Sequencing Analysis Refines Multi-Origin Monocyte and Macrophage Lineages.

PMID 41231218 · PMC12865363 · Cancer immunology research · 2026 · 6 claims · 8 setups

Full-text index only

TAMs arise from two distinct origins: C1QC+ TAMs likely derive from resident tissue macrophages, while SPP1+ TAMs and ISG15+ TAMs likely originate from circulating monocytes.

myeloid melanoma monocyte-to-macrophage coad-read scrna-seq differential developmental
Tensor-cell2cell v2 unravels coordinated dynamics of protein- and metabolite-mediated cell-cell communication.

PMID 41719185 · PMC12937581 · Bioinformatics (Oxford, England) · 2026 · 8 claims · 4 setups

Full-text index only

Tensor-cell2cell v2 implements a non-negative coupled tensor component analysis (CTCA) that jointly factorizes protein- and metabolite-mediated communication tensors sharing context, sender, and receiver dimensions while keeping ligand-type-specific (private) dimensions separate.

cortical paired single-cell protein-mediated metabolite-mediated
Distinct radial glia subtypes regulate midbrain dopaminergic neuron development.

PMID 41699318 · PMC13061605 · Nature neuroscience · 2026 · 8 claims · 8 setups

Full-text index only

Rgl1 is the progenitor of the mesDA neuronal lineage

embryonic developing wa09 bulk scrna-seq ligand-receptor
Characterizing Neutrophil Subtypes in Cancer Using scRNA Sequencing Demonstrates the Importance of IL1β/CXCR2 Axis in Generation of Metastasis-specific Neutrophils.

PMID 38358352 · PMC10903300 · Cancer research communications · 2024 · 8 claims · 7 setups

Has reproduction · 64

Two main neutrophil subtypes exist in primary tumors: an activated subtype sharing transcriptomic signatures with healthy neutrophils, and a tumor-specific subtype.

colorectal sorted integrated neutrophil scrna-seq bulk immunohistochemistry
A muscle-centered hierarchical breakdown underlies flight loss during silkworm domestication.

PMID 41716997 · PMC12915254 · iScience · 2026 · 8 claims · 8 setups

Full-text index only

Flight loss in B. mori results from a muscle-centered collapse of a three-tiered hierarchical genetic module comprising mitochondrial energy production (COX3/ND1), wing vein patterning (Dally/CtBP), and flight muscle specification (Yki)

wing wings flight mandarina single-cell spatial velocity
Molecular signatures of cell diversity modulated by long noncoding RNAs in the human fetal spinal cord.

PMID 42006319 · PMC13090696 · iScience · 2026 · 8 claims · 7 setups

Full-text index only

Three neural stem cell (NSC) lineages (NSC1, NSC2, NSCs) were annotated in the human fetal spinal cord

fetal nsc2 scrna-seq scstereo velocity
A Cross-Species Single-Cell Atlas Reveals Conserved Regulatory Networks and Candidate Hearing Loss Genes in the Cochlea.

PMID 42074555 · PMC13115875 · Genes · 2026 · 8 claims · 8 setups

Full-text index only

A cross-species single-cell/single-nucleus RNA-seq atlas of human fetal and mouse postnatal cochlea identifies 19 conserved major cell types

cochlea fetal top scrna-seq snrna-seq cell-cell
Targeted and personalized immunotherapy in lung adenocarcinoma: single-cell RNA sequencing of MAFF+ tumor cells and the therapeutic potential of FOS.

PMID 40936936 · PMC12420628 · Frontiers in immunology · 2025 · 7 claims · 8 setups

Has reproduction · 71

A highly stem-like C0 MAFF+ tumor cell subtype dominates invasive LUAD, producing chemokines and activating lipid metabolism

luad tumor a549 single-cell infercnv pseudotime
Metabolic reprogramming of tumor-associated macrophage clusters in ovarian cancer: a single-cell transcriptomic analysis and prognostic model.

PMID 41933362 · PMC13173987 · BioData mining · 2026 · 8 claims · 7 setups

Full-text index only

Single-cell analysis of integrated ovarian cancer datasets identifies 9 distinct mononuclear phagocyte clusters (MPC1-MPC9), of which MPC3, MPC5, and MPC7 are hypermetabolic

ovarian mpc annotated tcga-oc single-cell gene pseudotime
Single-Cell Sequencing Reveals γδT Cell Heterogeneity Under Distinct Microsatellite Statuses as a Potential Biomarker for Immunotherapy and Prognosis in Colorectal Cancer.

PMID 42074506 · PMC13116210 · Genes · 2026 · 7 claims · 8 setups

Full-text index only

γδT cells in colorectal cancer form five distinct subsets (C0_FCER1G, C1_IL7R, C2_CD81, C3_TOP2A, C4_CXCL13) with distinct marker genes and functional states

crc γδt epithelial c4_cxcl13 single-cell differential pseudotime
Deciphering the Immune Microenvironment at the Forefront of Tumor Aggressiveness by Constructing a Regulatory Network with Single-Cell and Spatial Transcriptomic Data.

PMID 38254989 · PMC10815467 · Genes · 2024 · 7 claims · 8 setups

Has reproduction · 85

High expression of transcription factors FOXA1 and EZH2 in malignant cells at the invasive front plays a key role in driving tumor progression

breast er+ epithelial malignant scrna-seq spatial copy
Migratory Tumor Cells Cooperate with Cancer Associated Fibroblasts in Hormone Receptor-Positive and HER2-Negative Breast Cancer.

PMID 38892065 · PMC11172245 · International journal of molecular sciences · 2024 · 8 claims · 8 setups

Full-text index only

HR+/HER2-BC tumor epithelial cells comprise four single-cell-defined functional (SC-f) subtypes: migratory, secretory, proliferating, and dysfunctional.

hr+ epcam-sorted tumor tcga-brca droplet sidr-seq bulk
SLC25A37 as a novel therapeutic target for benign prostatic hyperplasia: integrative analyses of single-cell RNA sequencing and genome-wide association studies.

PMID 41726128 · PMC12917586 · Open medicine (Warsaw, Poland) · 2026 · 8 claims · 8 setups

Full-text index only

SLC25A37 is causally associated with increased BPH risk, supported by MR, Bayesian colocalization, and reverse MR analyses

prostate gwas eqtl bph single-cell mendelian bayesian

Experiments

Pan-Cancer Single-Cell RNA Sequencing Analysis Refines Multi-Origin Monocyte and Macrophage Lineages.

Tensor-cell2cell v2 unravels coordinated dynamics of protein- and metabolite-mediated cell-cell communication.

Distinct radial glia subtypes regulate midbrain dopaminergic neuron development.

Characterizing Neutrophil Subtypes in Cancer Using scRNA Sequencing Demonstrates the Importance of IL1β/CXCR2 Axis in Generation of Metastasis-specific Neutrophils.

A muscle-centered hierarchical breakdown underlies flight loss during silkworm domestication.

Molecular signatures of cell diversity modulated by long noncoding RNAs in the human fetal spinal cord.

A Cross-Species Single-Cell Atlas Reveals Conserved Regulatory Networks and Candidate Hearing Loss Genes in the Cochlea.

Targeted and personalized immunotherapy in lung adenocarcinoma: single-cell RNA sequencing of MAFF+ tumor cells and the therapeutic potential of FOS.

Metabolic reprogramming of tumor-associated macrophage clusters in ovarian cancer: a single-cell transcriptomic analysis and prognostic model.

Single-Cell Sequencing Reveals γδT Cell Heterogeneity Under Distinct Microsatellite Statuses as a Potential Biomarker for Immunotherapy and Prognosis in Colorectal Cancer.

Deciphering the Immune Microenvironment at the Forefront of Tumor Aggressiveness by Constructing a Regulatory Network with Single-Cell and Spatial Transcriptomic Data.

Migratory Tumor Cells Cooperate with Cancer Associated Fibroblasts in Hormone Receptor-Positive and HER2-Negative Breast Cancer.

SLC25A37 as a novel therapeutic target for benign prostatic hyperplasia: integrative analyses of single-cell RNA sequencing and genome-wide association studies.