Single-cell biology: beyond the sum of its parts

A single-cell molecular map of mouse gastrulation and early organogenesis

(2019) Blanca Pijuan-Sala et al.   NATURE

Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH+

(2019) Chee-Huat Linus Eng et al.   NATURE

The single-cell transcriptional landscape of mammalian organogenesis

(2019) Junyue Cao et al.   NATURE

Lineage Tracing in Humans Enabled by Mitochondrial Mutations and Single-Cell Genomics

(2019) Leif S. Ludwig et al.   CELL

Single-Cell RNA-Seq Reveals AML Hierarchies Relevant to Disease Progression and Immunity

(2019) Peter van Galen et al.   CELL

Neurotransmitter identity is acquired in a lineage-restricted manner in the Drosophila CNS

(2019) Haluk Lacin et al.   eLife

Recording development with single cell dynamic lineage tracing

(2019) Aaron McKenna et al.   DEVELOPMENT

Single-Cell RNA Sequencing in Cancer: Lessons Learned and Emerging Challenges

(2019) Mario L. Suvà et al.   MOLECULAR CELL

Zebrafish oxytocin neurons drive nocifensive behavior via brainstem premotor targets

(2019) Caroline L. Wee et al.   NATURE NEUROSCIENCE

Classification of electrophysiological and morphological neuron types in the mouse visual cortex

(2019) Nathan W. Gouwens et al.   NATURE NEUROSCIENCE

The diversity of GABAergic neurons and neural communication elements

(2019) Z. Josh Huang et al.   NATURE REVIEWS NEUROSCIENCE

Spatiotemporal structure of cell fate decisions in murine neural crest

(2019) Ruslan Soldatov et al.   SCIENCE

Immuno-SABER enables highly multiplexed and amplified protein imaging in tissues

(2019) Sinem K. Saka et al.   NATURE BIOTECHNOLOGY

A lineage-resolved molecular atlas of C. elegans embryogenesis at single-cell resolution

(2019) Jonathan S. Packer et al.   SCIENCE

Mapping human cell phenotypes to genotypes with single-cell genomics

(2019) J. Gray Camp et al.   SCIENCE

Lineage does not regulate the sensory synaptic input of projection neurons in the mouse olfactory bulb

(2019) Luis Sánchez-Guardado et al.   eLife

Cross-Species Analysis of Single-Cell Transcriptomic Data

(2019) Maxwell E. R. Shafer   Frontiers in Cell and Developmental Biology

Single-Cell Reconstruction of Emerging Population Activity in an Entire Developing Circuit

(2019) Yinan Wan et al.   CELL

Multimodal Analysis of Cell Types in a Hypothalamic Node Controlling Social Behavior

(2019) Dong-Wook Kim et al.   CELL

Unravelling cellular relationships during development and regeneration using genetic lineage tracing

(2019) Chloé S. Baron et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Ageing affects DNA methylation drift and transcriptional cell-to-cell variability in mouse muscle stem cells

(2019) Irene Hernando-Herraez et al.   Nature Communications

Multimodal single-cell approaches shed light on T cell heterogeneity

(2019) Aparna Nathan et al.   CURRENT OPINION IN IMMUNOLOGY

Multi-omics profiling of mouse gastrulation at single-cell resolution

(2019) Ricard Argelaguet et al.   NATURE

Dynamics and Spatial Genomics of the Nascent Transcriptome by Intron seqFISH

(2018) Sheel Shah et al.   CELL

Simultaneous single-cell profiling of lineages and cell types in the vertebrate brain

(2018) Bushra Raj et al.   NATURE BIOTECHNOLOGY

Single-cell reconstruction of developmental trajectories during zebrafish embryogenesis

(2018) Jeffrey A. Farrell et al.   SCIENCE

The dynamics of gene expression in vertebrate embryogenesis at single-cell resolution

(2018) James A. Briggs et al.   SCIENCE

Single-cell mapping of gene expression landscapes and lineage in the zebrafish embryo

(2018) Daniel E. Wagner et al.   SCIENCE

Deep Profiling of Mouse Splenic Architecture with CODEX Multiplexed Imaging

(2018) Yury Goltsev et al.   CELL

A single-cell atlas of the airway epithelium reveals the CFTR-rich pulmonary ionocyte

(2018) Lindsey W. Plasschaert et al.   NATURE

A revised airway epithelial hierarchy includes CFTR-expressing ionocytes

(2018) Daniel T. Montoro et al.   NATURE

Population dynamics of normal human blood inferred from somatic mutations

(2018) Henry Lee-Six et al.   NATURE

Multiplexed protein maps link subcellular organization to cellular states

(2018) Gabriele Gut et al.   SCIENCE

Joint profiling of chromatin accessibility and gene expression in thousands of single cells

(2018) Junyue Cao et al.   SCIENCE

Diversity of Interneurons in the Dorsal Striatum Revealed by Single-Cell RNA Sequencing and PatchSeq

(2018) Ana B. Muñoz-Manchado et al.   Cell Reports

Single-cell mapping of lineage and identity in direct reprogramming

(2018) Brent A. Biddy et al.   NATURE

Molecular, spatial, and functional single-cell profiling of the hypothalamic preoptic region

(2018) Jeffrey R. Moffitt et al.   SCIENCE

Synthetic recording and in situ readout of lineage information in single cells

(2017) Kirsten L. Frieda et al.   NATURE

Neuronal cell-type classification: challenges, opportunities and the path forward

(2017) Hongkui Zeng et al.   NATURE REVIEWS NEUROSCIENCE

Global mRNA polarization regulates translation efficiency in the intestinal epithelium

(2017) Andreas E. Moor et al.   SCIENCE

The promise of spatial transcriptomics for neuroscience in the era of molecular cell typing

(2017) Ed Lein et al.   SCIENCE

T cell fate and clonality inference from single-cell transcriptomes

(2016) Michael J T Stubbington et al.   NATURE METHODS

Spatial reconstruction of single-cell gene expression data

(2015) Rahul Satija et al.   NATURE BIOTECHNOLOGY

High-throughput spatial mapping of single-cell RNA-seq data to tissue of origin

(2015) Kaia Achim et al.   NATURE BIOTECHNOLOGY

Single-Cell Trajectory Detection Uncovers Progression and Regulatory Coordination in Human B Cell Development

(2014) Sean C. Bendall et al.   CELL

Clonal dynamics of native haematopoiesis

(2014) Jianlong Sun et al.   NATURE

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells

(2014) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

How Variable Clones Build an Invariant Retina

(2012) Jie He et al.   NEURON