EASI-FISH for thick tissue defines lateral hypothalamus spatio-molecular organization

Expansion sequencing: Spatially precise in situ transcriptomics in intact biological systems

(2021) Shahar Alon et al.   SCIENCE

Transcriptional and functional divergence in lateral hypothalamic glutamate neurons projecting to the lateral habenula and ventral tegmental area

(2021) Mark A. Rossi et al.   NEURON

Molecular design of hypothalamus development

(2020) Roman A. Romanov et al.   NATURE

In situ differentiation of iridophore crystallotypes underlies zebrafish stripe patterning

(2020) Dvir Gur et al.   Nature Communications

Cortical column and whole-brain imaging with molecular contrast and nanoscale resolution

(2019) Ruixuan Gao et al.   SCIENCE

Distinct Subsets of Lateral Hypothalamic Neurotensin Neurons are Activated by Leptin or Dehydration

(2019) Juliette A. Brown et al.   Scientific Reports

Macroscale intrinsic network architecture of the hypothalamus

(2019) Joel D. Hahn et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Single-cell transcriptomic analysis of the lateral hypothalamic area reveals molecularly distinct populations of inhibitory and excitatory neurons

(2019) Laura E. Mickelsen et al.   NATURE NEUROSCIENCE

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

Obesity remodels activity and transcriptional state of a lateral hypothalamic brake on feeding

(2019) Mark A. Rossi et al.   SCIENCE

Probabilistic cell typing enables fine mapping of closely related cell types in situ

(2019) Xiaoyan Qian et al.   NATURE METHODS

Dissociable Structural and Functional Hippocampal Outputs via Distinct Subiculum Cell Classes

(2018) Mark S. Cembrowski et al.   CELL

Third-generationin situhybridization chain reaction: multiplexed, quantitative, sensitive, versatile, robust

(2018) Harry M. T. Choi et al.   DEVELOPMENT

Integrating single-cell transcriptomic data across different conditions, technologies, and species

(2018) Andrew Butler et al.   NATURE BIOTECHNOLOGY

Genetic Dissection of Neural Circuits: A Decade of Progress

(2018) Liqun Luo et al.   NEURON

Three-dimensional intact-tissue sequencing of single-cell transcriptional states

(2018) Xiao Wang et al.   SCIENCE

Clustering trees: a visualisation for evaluating clusterings at multiple resolutions

(2018) Luke Zappia et al.   GigaScience

Molecular Diversity and Specializations among the Cells of the Adult Mouse Brain

(2018) Arpiar Saunders et al.   CELL

Molecular Architecture of the Mouse Nervous System

(2018) Amit Zeisel et al.   CELL

Activation of lateral hypothalamic area neurotensin-expressing neurons promotes drinking

(2018) Gizem Kurt et al.   NEUROPHARMACOLOGY

Shared and distinct transcriptomic cell types across neocortical areas

(2018) Bosiljka Tasic et al.   NATURE

Spatial organization of the somatosensory cortex revealed by osmFISH

(2018) Simone Codeluppi et al.   NATURE METHODS

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

(2018) Jeffrey R. Moffitt et al.   SCIENCE

Nextflow enables reproducible computational workflows

(2017) Paolo Di Tommaso et al.   NATURE BIOTECHNOLOGY

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

(2017) Hongkui Zeng et al.   NATURE REVIEWS NEUROSCIENCE

seqFISH Accurately Detects Transcripts in Single Cells and Reveals Robust Spatial Organization in the Hippocampus

(2017) Sheel Shah et al.   NEURON

Genetically Distinct Parallel Pathways in the Entopeduncular Nucleus for Limbic and Sensorimotor Output of the Basal Ganglia

(2017) Michael L. Wallace et al.   NEURON

General Synthetic Method for Si-Fluoresceins and Si-Rhodamines

(2017) Jonathan B. Grimm et al.   ACS Central Science

FAST AUTOMATIC SEGMENTATION OF HIPPOCAMPAL SUBFIELDS AND MEDIAL TEMPORAL LOBE SUBREGIONS IN 3 TESLA AND 7 TESLA T2-WEIGHTED MRI

(2016) Paul A. Yushkevich et al.   Alzheimers & Dementia

Protein-retention expansion microscopy of cells and tissues labeled using standard fluorescent proteins and antibodies

(2016) Paul W Tillberg et al.   NATURE BIOTECHNOLOGY

Nanoscale imaging of RNA with expansion microscopy

(2016) Fei Chen et al.   NATURE METHODS

Lateral hypothalamic circuits for feeding and reward

(2016) Garret D Stuber et al.   NATURE NEUROSCIENCE

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

(2016) Sheel Shah et al.   NEURON

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

(2015) Evan Z. Macosko et al.   CELL

Ventral Tegmental Area Neurotensin Signaling Links the Lateral Hypothalamus to Locomotor Activity and Striatal Dopamine Efflux in Male Mice

(2015) Christa M. Patterson et al.   ENDOCRINOLOGY

Spatial reconstruction of single-cell gene expression data

(2015) Rahul Satija et al.   NATURE BIOTECHNOLOGY

CIDRE: an illumination-correction method for optical microscopy

(2015) Kevin Smith et al.   NATURE METHODS

BigDataViewer: visualization and processing for large image data sets

(2015) Tobias Pietzsch et al.   NATURE METHODS

Spatially resolved, highly multiplexed RNA profiling in single cells

(2015) K. H. Chen et al.   SCIENCE

Expansion microscopy

(2015) F. Chen et al.   SCIENCE

A mesoscale connectome of the mouse brain

(2014) Seung Wook Oh et al.   NATURE

Single-cell in situ RNA profiling by sequential hybridization

(2014) Eric Lubeck et al.   NATURE METHODS

Lateral hypothalamic thyrotropin-releasing hormone neurons: Distribution and relationship to histochemically defined cell populations in the rat

(2014) E. Horjales-Araujo et al.   NEUROSCIENCE

Parallel, Redundant Circuit Organization for Homeostatic Control of Feeding Behavior

(2013) J. Nicholas Betley et al.   CELL

Hypothalamic Neurotensin Projections Promote Reward by Enhancing Glutamate Transmission in the VTA

(2013) K. A. Kempadoo et al.   JOURNAL OF NEUROSCIENCE

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

RNAscope

(2011) Fay Wang et al.   JOURNAL OF MOLECULAR DIAGNOSTICS

A transgenic mouse for in vivo detection of endogenous labeled mRNA

(2011) Timothée Lionnet et al.   NATURE METHODS

Distinct patterns of neuronal inputs and outputs of the juxtaparaventricular and suprafornical regions of the lateral hypothalamic area in the male rat

(2010) Joel D. Hahn et al.   BRAIN RESEARCH REVIEWS

Globally optimal stitching of tiled 3D microscopic image acquisitions

(2009) S. Preibisch et al.   BIOINFORMATICS

Comparison of melanin-concentrating hormone and hypocretin/orexin peptide expression patterns in a current parceling scheme of the lateral hypothalamic zone

(2009) Joel D. Hahn   NEUROSCIENCE LETTERS