ArticleNucleic acids research2019
Single-Cell Signature Explorer for comprehensive visualization of single cell signatures across scRNA-seq datasets.
Article in Nucleic acids research, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 80 papers, 1 of them a synthesis that pooled it.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
80 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Pooled it
- Deciphering the single-cell molecular landscape of ampullary cancer: A rare gastrointestinal malignancy.iScience · 2026Article
- DataXflowGen for GenAI-driven model generation.Scientific reports · 2026Article
- EMTscore infers divergent EMT pathways from omics data and enables rapid screening for EMT-associated gene sets.Bioinformatics (Oxford, England) · 2026Article
- EMTscore infers divergent EMT pathways from omics data and enables rapid screening for correlated gene sets.bioRxiv : the preprint server for biology · 2026Article
- PLAID: ultrafast single-sample gene set enrichment scoring.Bioinformatics (Oxford, England) · 2025Article
- Single-cell transcriptional dissection illuminates an evolution of immunosuppressive microenvironment during pancreatic ductal adenocarcinoma metastasis.Signal transduction and targeted therapy · 2025Article
- Single-Cell Multiomics Analysis of Early Wound Response Programs in the Mouse Corneal Epithelium.Investigative ophthalmology & visual science · 2025Article
- Neutrophil extracellular traps (NETs) are increased in rheumatoid arthritis-associated interstitial lung disease.Respiratory research · 2025Article
- Comparative analysis of single-cell pathway scoring methods and a novel approach.NAR genomics and bioinformatics · 2024Article
- IL-27 maintains cytotoxic Ly6CThe EMBO journal · 2024Article
- Farnesyltransferase inhibition overcomes oncogene-addicted non-small cell lung cancer adaptive resistance to targeted therapies.Nature communications · 2024Article
- Single-Nucleus Multiomic Analyses Identifies Gene Regulatory Dynamics of Phenotypic Modulation in Human Aneurysmal Aortic Root.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- irGSEA: the integration of single-cell rank-based gene set enrichment analysis.Briefings in bioinformatics · 2024Article
- Article
- Modeling Melanoma Heterogeneity In Vitro: Redox, Resistance and Pigmentation Profiles.Antioxidants (Basel, Switzerland) · 2024Article
- Cytidine Deaminase Resolves Replicative Stress and Protects Pancreatic Cancer from DNA-Targeting Drugs.Cancer research · 2024Article
- Exploring the current landscape of single-cell RNA sequencing applications in gastric cancer research.Journal of cellular and molecular medicine · 2024Review
- Mapping the developmental potential of mouse inner ear organoids at single-cell resolution.iScience · 2024Article
- Identification, sorting and profiling of functional killer cells via the capture of fluorescent target-cell lysate.Nature biomedical engineering · 2024Article
20 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The momentum of scRNA-seq datasets prompts for simple and powerful tools exploring their meaningful signatures. Here we present Single-Cell_Signature_Explorer (https://sites.google.com/site/fredsoftwares/products/single-cell-signature-explorer), the first method for qualitative and high-throughput scoring of any gene set-based signature at the single cell level and its visualization using t-SNE or UMAP. By scanning datasets for single or combined signatures, it rapidly maps any multi-gene feature, exemplified here with signatures of cell lineages, biological hallmarks and metabolic pathways in large scRNAseq datasets of human PBMC, melanoma, lung cancer and adult testis.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.