From tissues to cell types and back: single-cell gene expression analysis of tissue architecture

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Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells

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Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq

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The prognostic landscape of genes and infiltrating immune cells across human cancers

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Spatially resolved, highly multiplexed RNA profiling in single cells

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Tumour evolution inferred by single-cell sequencing

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Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors

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Single-cell RNA-seq reveals new types of human blood dendritic cells, monocytes, and progenitors

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Single-cell mRNA quantification and differential analysis with Census

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Perturb-Seq: Dissecting Molecular Circuits with Scalable Single-Cell RNA Profiling of Pooled Genetic Screens

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Single-cell RNA-Seq profiling of human preimplantation embryos and embryonic stem cells

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A comparison of single-cell trajectory inference methods

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Full-length mRNA-Seq from single-cell levels of RNA and individual circulating tumor cells

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Mapping the Mouse Cell Atlas by Microwell-Seq

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Single-Cell Transcriptome Profiling of Human Pancreatic Islets in Health and Type 2 Diabetes

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Visualization of Single RNA Transcripts in Situ

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SC3: consensus clustering of single-cell RNA-seq data

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Comparative Analysis of Single-Cell RNA Sequencing Methods

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Single-cell profiling of the developing mouse brain and spinal cord with split-pool barcoding

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Comprehensive single cell transcriptional profiling of a multicellular organism by combinatorial indexing

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Diffusion pseudotime robustly reconstructs lineage branching

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Bayesian approach to single-cell differential expression analysis

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A Single-Cell Transcriptome Atlas of the Human Pancreas

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CEL-seq: single-cell RNA-seq by multiplexed linear amplification

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A Multiplexed Single-Cell CRISPR Screening Platform Enables Systematic Dissection of the Unfolded Protein Response

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Quantitative single-cell RNA-seq with unique molecular identifiers

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Computational and analytical challenges in single-cell transcriptomics

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Pooled CRISPR screening with single-cell transcriptome readout.

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Single-cell sequencing reveals dissociation-induced gene expression in tissue subpopulations

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Single-Cell RNA-Seq Reveals Lineage and X Chromosome Dynamics in Human Preimplantation Embryos

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Genetic programs in human and mouse early embryos revealed by single-cell RNA sequencing

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Low-coverage single-cell mRNA sequencing reveals cellular heterogeneity and activated signaling pathways in developing cerebral cortex

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In Situ Transcription Profiling of Single Cells Reveals Spatial Organization of Cells in the Mouse Hippocampus

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Div-Seq: Single-nucleus RNA-Seq reveals dynamics of rare adult newborn neurons

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Wishbone identifies bifurcating developmental trajectories from single-cell data

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Reviewer #3 (Public Review): Deciphering deep-sea chemosynthetic symbiosis by single-nucleus RNA-sequencing

(2024) · eLife · doi:10.7554/elife.88294.3.sa1

Reviewer #2 (Public Review): Deciphering deep-sea chemosynthetic symbiosis by single-nucleus RNA-sequencing

(2024) · eLife · doi:10.7554/elife.88294.3.sa2

Author response: Deciphering deep-sea chemosynthetic symbiosis by single-nucleus RNA-sequencing

Wang, H., He, K., Zhang, H., Zhang, Q., Cao, L., Li, J., Zhong, Z., Chen, H., Zhou, L., Lian, C., et al. (2024) · eLife · doi:10.7554/elife.88294.3.sa0

eLife Assessment: Deciphering deep-sea chemosynthetic symbiosis by single-nucleus RNA-sequencing

Paz‐García, D. A. (2024) · eLife · doi:10.7554/elife.88294.3.sa4

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