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Cell identity specification in plants: lessons from flower development

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New hypotheses of cell type diversity and novelty from orthology-driven comparative single cell and nuclei transcriptomics in echinoderms

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Histone H3.1 is a chromatin-embedded redox sensor triggered by tumor cells developing adaptive phenotypic plasticity and multidrug resistance

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A dynamic and multimodal framework to define microglial states

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Transcriptomic profile comparison reveals conservation of ionocytes across multiple organs

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Large-volume fully automated cell reconstruction generates a cell atlas of plant tissues

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Senescence: An Identity Crisis Originating from Deep Within the Nucleus

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Lineage-resolved analysis of embryonic gene expression evolution in C. elegans and C. briggsae

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Evaluating microglial phenotypes using single-cell technologies

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The biology of time: dynamic responses of cell types to developmental, circadian and environmental cues

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Assessment and Optimization of Explainable Machine Learning Models Applied to Transcriptomic Data

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The crosstalk between cellular reprogramming and senescence in aging and regeneration

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Allometry of cell types in planarians by single-cell transcriptomics

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Single-cell gene expression analysis of cryopreserved equine bronchoalveolar cells

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Reduction of a stochastic model of gene expression: Lagrangian dynamics gives access to basins of attraction as cell types and metastabilty

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Recent Advances in Monitoring Stem Cell Status and Differentiation Using Nano-Biosensing Technologies

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Using quantitative methods to understand leaf epidermal development

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Two distinct waves of transcriptome and translatome changes drive Drosophila germline stem cell differentiation

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The Biodiversity Cell Atlas: mapping the tree of life at cellular resolution

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Aryl Hydrocarbon Receptor: From Homeostasis to Tumor Progression

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Identifying cell states in single-cell RNA-seq data at statistically maximal resolution

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Forecasting cellular states: from descriptive to predictive biology via single-cell multiomics

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Discovering New Progenitor Cell Populations through Lineage Tracing and In Vivo ImagingPreprint

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Single-cell transcriptomic analysis highlights specific cell types manipulated by Fusarium head blight fungus leading to wheat susceptibility

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Advances of single-cell genomics and epigenomics in human disease: where are we now?

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Direct In Vitro Reprogramming of Astrocytes into Induced Neurons

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The evolving definition of plant cell type

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Molecular mechanisms reconstruction from single-cell multi-omics data with HuMMuS

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On knowing a gene: A distributional hypothesis of gene function

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On the origins and conceptual frameworks of natural plasticity—Lessons from single-cell models in C. elegans

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Mid-Infrared Photothermal–Fluorescence In Situ Hybridization for Functional Analysis and Genetic Identification of Single Cells

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Activated-memory T cells influence naïve T cell fate: a noncytotoxic function of human CD8 T cells

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Hybrid Clustering of Single-Cell Gene Expression and Spatial Information via Integrated NMF and K-Means

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Neuronal Spike Shapes (NSS): A straightforward approach to investigate heterogeneity in neuronal excitability states

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Development of a hepatic cryoinjury model to study liver regeneration

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Single cell analyses of development in the modern era

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Fate restrictions in embryonic neural progenitors

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Mathematics of neural stem cells: Linking data and processes

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Unraveling Root Development Through Single-Cell Omics and Reconstruction of Gene Regulatory Networks

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Defining cell identity beyond the premise of differential gene expression

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Identifying Cell‐Type‐Specific Metabolic Signatures Using Transcriptome and Proteome Analyses

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Evolving features of human cortical development and the emerging roles of non-coding RNAs in neural progenitor cell diversity and function

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Cell types as species: Exploring a metaphor

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Learning cell identity in immunology, neuroscience, and cancer

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Multiomic single-cell lineage tracing to dissect fate-specific gene regulatory programsPreprint

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Epigenetic control of metabolic identity across cell types

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How a cell decides its own fate: a single-cell view of molecular mechanisms and dynamics of cell-type specification

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Modelling cell adaptation using internal variables: Accounting for cell plasticity in continuum mathematical biology

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Enhancer grammar of liver cell types and hepatocyte zonation states

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That Stinging Sensation: Modularity and the Origin of the Stinging Cell

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Condensates and cell states: A new paradigm for understanding tumor biology

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Single-cell and spatial transcriptomics in plants: from cell states to inter-tissue coordination

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Developmental biology is poised to discover altogether new principles in biology in the 21st century

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Coupled differentiation and division of embryonic stem cells inferred from clonal snapshots

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Coupled differentiation and division of embryonic stem cells inferred from clonal snapshots

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Cellular identity through the lens of direct lineage reprogramming

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Epigenomics in the single cell era, an important read out for genome function and cell identity

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Multiparameter stimulation mapping of signaling states in single pediatric immune cells reveals heightened tonic activation during pubertyPreprint

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Single-cell morphodynamics predict cell fate decisions during mucociliary epithelial differentiation

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Let’s Talk About Sex…Cell Lineages

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Single nucleus pituitary transcriptomic and epigenetic landscape reveals human stem cell heterogeneity with diverse regulatory mechanismsPreprint

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Reviewer #2 (Public Review): Identification of type 2 diabetes- and obesity-associated human β-cells using deep transfer learning

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Defining and identifying cell sub-crosstalk pairs for characterizing cell–cell communication patterns

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Oscillatory differentiation dynamics fundamentally restricts the resolution of pseudotime reconstruction algorithms

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Data enhancement in the age of spatial biology

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Can brain neurons change identity? Lessons from obesity

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High order expression dependencies finely resolve cryptic states and subtypes in single cell data

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Coralysis enables sensitive identification of imbalanced cell types and states in single-cell data via multi-level integration

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Towards a Quantitative Understanding of Cell Identity

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Pinpointing Cell Identity in Time and Space

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