ArticleCell systems2023
What cannot be seen correctly in 2D visualizations of single-cell 'omics data?
Article in Cell systems, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
15 citing papers in PubMed.
- Dynamic Landscape Analysis of cell fate decisions provides predictive models of neural development from single-cell data.PLoS biology · 2026Article
- Interactive visualization of metric distortion in nonlinear data embeddings using the distortions package.Briefings in bioinformatics · 2026Article
- Single cell snapshot analyses under proper representation reveal that epithelial-mesenchymal transition couples at G1 and G2/M.Communications biology · 2026Article
- Article
- SEAL: Spatially-resolved Embedding Analysis with Linked Imaging Data.IEEE transactions on visualization and computer graphics · 2026Article
- Model-based dimensionality reduction for single-cell RNA-seq using generalized bilinear models.Biostatistics (Oxford, England) · 2025Article
- DeepAtlas: a tool for effective manifold learning.bioRxiv : the preprint server for biology · 2025Article
- SEAL : Spatially-resolved Embedding Analysis with Linked Imaging Data.bioRxiv : the preprint server for biology · 2025Article
- Morphology-Aware Profiling of Highly Multiplexed Tissue Images using Variational Autoencoders.bioRxiv : the preprint server for biology · 2025Article
- Applications of machine learning for immunophenotypic measurable residual disease assessment in acute myeloid leukemia.HemaSphere · 2025Review
- Diffusive topology preserving manifold distances for single-cell data analysis.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Computational assessment of measurable residual disease in acute myeloid leukemia using mixture models.Communications medicine · 2024Article
- Cell- and tissue-specific glycosylation pathways informed by single-cell transcriptomics.NAR genomics and bioinformatics · 2024Article
- The art of seeing the elephant in the room: 2D embeddings of single-cell data do make sense.PLoS computational biology · 2024Article
- Cell and tissue-specific glycosylation pathways informed by single-cell transcriptomics.bioRxiv : the preprint server for biology · 2024Article
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
Abstract
A common strategy for exploring single-cell 'omics data is visualizing 2D nonlinear projections that aim to preserve high-dimensional data properties such as neighborhoods. Alternatively, mathematical theory and other computational tools can directly describe data geometry, while also showing that neighborhoods and other properties cannot be well-preserved in any 2D projection.
Identifiers
What OpenQuestion holds
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.