ArticleCell2019
Comprehensive Integration of Single-Cell Data.
Article in Cell, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9,705 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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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
9,705 citing papers in PubMed.
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- TORC: Target-Oriented Reference Construction for Supervised Cell-Type Identification in scRNA-seq.Methods in molecular biology (Clifton, N.J.) · 2027Article
- Leveraging Single-Cell RNA Sequencing to Characterize Murine Ewing Sarcoma Xenografts.Methods in molecular biology (Clifton, N.J.) · 2027Article
- Immunophenotyping by Single-Cell CITE-Seq.Methods in molecular biology (Clifton, N.J.) · 2027Article
- Natural microbiota confer life-long protection against obesity via an early-life, immune-mediated effect on brown adipocytes.Gut microbes · 2026Article
- GRAIL-heart: A graph attention network for inferring ligand-receptor interactions in spatial transcriptomics.MethodsX · 2026Article
- Article
- Single-cell transcriptomic atlas uncovers immune/structural lineage remodeling and fibrosis inVirulence · 2026Article
- Multi-Network Co-expression Analysis Enhances Biological Insights from Single-Cell Gene Expression.Interdisciplinary sciences, computational life sciences · 2026Article
- Mitochondria-related pathogenic genes in acute and chronic kidney disease: a Mendelian randomization study.Renal failure · 2026Article
- Single-cell transcriptome revealed the aberrant keratinocytes activation in antigen presentation in atopic dermatitis.Annals of medicine · 2026Article
- MIGC: Pseudotime differentially expressed genes detection with mutual information.Quantitative biology (Beijing, China) · 2026Article
- KGLAR: Deconvoluting Spatial Transcriptomics Data with Single-cell Transcriptomes through Knowledge-guided NMF and Least Angle Regression.Interdisciplinary sciences, computational life sciences · 2026Article
- A bottleneck-first evaluation of antigen delivery platforms for therapeutic cancer vaccines.Materials today. Bio · 2026Review
- Sheep in vivo models for evaluation of safety, functionality and regenerative potential of arterial grafts.MethodsX · 2026Article
- Single-cell landscape of piglet lung response withVirulence · 2026Article
- NOTCH3 disrupts the osteoblast transcriptome in femoral bone of 1-month-old male C57BL/6 mice.Bone · 2026Article
- Senescence-associated prostate cancer cells promote fibroblast reprogramming and extracellular matrix remodeling.Neoplasia (New York, N.Y.) · 2026Article
- Spatial transcriptomics revealed the regulatory role of CCN1 to microglia distribution through region-specific cellular interactions.Genes & diseases · 2026Article
9,645 more citing papers are in PubMed but not listed here.
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Authors and funding
10 authors.
Funding
Abstract
Single-cell transcriptomics has transformed our ability to characterize cell states, but deep biological understanding requires more than a taxonomic listing of clusters. As new methods arise to measure distinct cellular modalities, a key analytical challenge is to integrate these datasets to better understand cellular identity and function. Here, we develop a strategy to "anchor" diverse datasets together, enabling us to integrate single-cell measurements not only across scRNA-seq technologies, but also across different modalities. After demonstrating improvement over existing methods for integrating scRNA-seq data, we anchor scRNA-seq experiments with scATAC-seq to explore chromatin differences in closely related interneuron subsets and project protein expression measurements onto a bone marrow atlas to characterize lymphocyte populations. Lastly, we harmonize in situ gene expression and scRNA-seq datasets, allowing transcriptome-wide imputation of spatial gene expression patterns. Our work presents a strategy for the assembly of harmonized references and transfer of information across datasets.
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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.