ReviewGenome biology2016
Design and computational analysis of single-cell RNA-sequencing experiments.
Review in Genome biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 237 papers, 2 of them syntheses that pooled it.
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
237 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Guidelines for bioinformatics of single-cell sequencing data analysis in Alzheimer's disease: review, recommendation, implementation and application.Molecular neurodegeneration · 2022Pooled it
- A Review of Statistical Methods for Identifying Trait-Relevant Tissues and Cell Types.Frontiers in genetics · 2020Pooled it
- CD27 Agonist Antibodies Mediate Clinical Responses through Intratumoral Stimulation in B-cell Malignancies: Multicenter RiVa Trial.Clinical cancer research : an official journal of the American Association for Cancer Research · 2025Trial
- Towards Improving Embryo Prioritization: Parallel Next Generation Sequencing of DNA and RNA from a Single Trophectoderm Biopsy.Scientific reports · 2019Trial
- Intestinal Stem Cells: Regulation, Plasticity, and Therapeutic Potential.Methods in molecular biology (Clifton, N.J.) · 2027Review
- An imputation method for single-cell RNA sequencing data based on a parallel gated recurrent unit neural network.Quantitative biology (Beijing, China) · 2026Article
- Article
- Single-cell RNA sequencing and cross-species analysis revealed the role of T cell-driven inflammatory responses in the pathogenesis of aortic dissection.BMC cardiovascular disorders · 2026Article
- Decoding triple negative breast cancer bone metastasis: from 3D bioprinted models to clinical translation.Journal of nanobiotechnology · 2026Review
- Bayesian inference of haematopoietic stem/progenitor cell differentiation phenotypic manifolds and their bifurcation points using Gaussian processes and Gibbs sampling.Scientific reports · 2026Article
- Simultaneous modeling of chromatin conformation changes from multiple single-cell interaction maps with ChromMovie.Genome research · 2026Article
- Single-cell analysis reveals cellular heterogeneity and limits of marker-based assessment in retinal ganglion cell-enriched organoid cultures.Molecular medicine (Cambridge, Mass.) · 2026Article
- Interpretable trajectory inference with single-cell linear adaptive negative-binomial expression (scLANE) testing.Nucleic acids research · 2026Article
- GSCI: A Generative and Sparse Compressed Sensing Imputation Framework for Single-Cell RNA-Sequencing Dropout Recovery.Computational and structural biotechnology journal · 2026Article
- Graph Topology Reframes the Coherence of Cell-State Manifold Inference under Heterogeneous Single-Cell Observations.Computational and structural biotechnology journal · 2026Article
- Leveraging Genetic Instrumental Variables and Sequencing Analysis to Identify a Prognostic Signature Based on Epithelial Cell Markers in Lung Adenocarcinoma.Thoracic cancer · 2026Article
- Quantum Generative Modeling of Single-Cell transcriptomes: Capturing Gene-Gene and Cell-Cell Interactions.ArXiv · 2025Article
- Single-cell RNA sequencing in osteosarcoma: applications in diagnosis, prognosis, and treatment.Medical oncology (Northwood, London, England) · 2025Review
- Precision and Accuracy in Quantitative Measurement of Gene Expression from Single-cell/nucleus RNA Sequencing Data.Genomics, proteomics & bioinformatics · 2025Article
- Adaptive individualized gene pair signatures distinguishing melanoma and predicting response to immune checkpoint blockade.iScience · 2025Article
177 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
2 authors.
Funding
Abstract
Single-cell RNA-sequencing (scRNA-seq) has emerged as a revolutionary tool that allows us to address scientific questions that eluded examination just a few years ago. With the advantages of scRNA-seq come computational challenges that are just beginning to be addressed. In this article, we highlight the computational methods available for the design and analysis of scRNA-seq experiments, their advantages and disadvantages in various settings, the open questions for which novel methods are needed, and expected future developments in this exciting area.
Indexed as
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.