A5011375809- Single-cell and spatial transcriptomics
- MicroRNA in disease regulation
- Neuroinflammation and Neurodegeneration Mechanisms
- Circadian rhythm and melatonin
- Cell Image Analysis Techniques
- Gut microbiota and health
- RNA Research and Splicing
- Genomics and Phylogenetic Studies
- Neurogenesis and neuroplasticity mechanisms
- Cancer Cells and Metastasis
- Pregnancy and preeclampsia studies
- Neural dynamics and brain function
- Gene expression and cancer classification
- Prenatal Screening and Diagnostics
- Zebrafish Biomedical Research Applications
- Cancer Genomics and Diagnostics
- Molecular Biology Techniques and Applications
- Cancer-related molecular mechanisms research
- Microbial Community Ecology and Physiology
- Birth, Development, and Health
- RNA modifications and cancer
- Oral microbiology and periodontitis research
- HER2/EGFR in Cancer Research
- Tissue Engineering and Regenerative Medicine
- Advanced Fluorescence Microscopy Techniques
Technion – Israel Institute of Technology
2008-2024
Weizmann Institute of Science
2009-2024
Karolinska Institutet
2013-2018
Science for Life Laboratory
2016-2018
Toyota Technological Institute at Chicago
2013
Broad Institute
2011
The mammalian cerebral cortex supports cognitive functions such as sensorimotor integration, memory, and social behaviors. Normal brain function relies on a diverse set of differentiated cell types, including neurons, glia, vasculature. Here, we have used large-scale single-cell RNA sequencing (RNA-seq) to classify cells in the mouse somatosensory hippocampal CA1 region. We found 47 molecularly distinct subclasses, comprising all known major types cortex. identified numerous marker genes,...
The mammalian nervous system executes complex behaviors controlled by specialized, precisely positioned, and interacting cell types. Here, we used RNA sequencing of half a million single cells to create detailed census types in the mouse system. We mapped spatially derived hierarchical, data-driven taxonomy. Neurons were most diverse grouped developmental anatomical units expression neurotransmitters neuropeptides. Neuronal diversity was driven genes encoding identity, synaptic connectivity,...
Oligodendrocytes have been considered as a functionally homogeneous population in the central nervous system (CNS). We performed single-cell RNA sequencing on 5072 cells of oligodendrocyte lineage from 10 regions mouse juvenile and adult CNS. Thirteen distinct populations were identified, 12 which represent continuum Pdgfra(+) precursor (OPCs) to mature oligodendrocytes. Initial stages differentiation similar across CNS, whereas subsets oligodendrocytes enriched specific brain. Newly formed...
Understanding human embryonic ventral midbrain is of major interest for Parkinson's disease. However, the cell types, their gene expression dynamics, and relationship to commonly used rodent models remain be defined. We performed single-cell RNA sequencing examine development in mouse. found 25 molecularly defined including five subtypes radial glia-like cells four progenitors. In mouse, two mature fetal dopaminergic neuron diversified into adult classes during postnatal development. Cell...
Highlights•Single-cell RNA sequencing of striatal interneurons reveals seven main classes•Subclass-specific latent factor analysis gradients gene expression•Pvalb neurons are not a discrete class but belong to expressing Pthlh•Interneuron classes vary in their similarity counterparts from cortex/hippocampusSummaryStriatal locally projecting neurons, or interneurons, act on nearby circuits and shape functional output the rest basal ganglia. We performed single-cell cells enriching for...
Most of our knowledge about the remarkable microbial diversity on Earth comes from sequencing 16S rRNA gene. The use next-generation methods has increased sample number and depth, but read length most widely used platforms today is quite short, requiring researcher to choose a subset gene sequence (typically 16–33% total length). Thus, many bacteria may share same amplified region, resolution profiling inherently limited. Platforms that offer ultra-long lengths, whole genome shotgun...
Abstract The amygdala is a brain region primarily associated with emotional response. use of genetic markers and single-cell transcriptomics can provide insights into behavior-associated cell state changes. Here we present detailed cell-type taxonomy the adult mouse during fear learning memory consolidation. We perform RNA sequencing on naïve fear-conditioned mice, identify 130 neuronal types validate their spatial distributions. A subset all transcriptionally responsive to retrieval....
Article13 September 2011Open Access Coupled pre-mRNA and mRNA dynamics unveil operational strategies underlying transcriptional responses to stimuli Amit Zeisel Department of Physics Complex Systems, Weizmann Institute Science, Rehovot, Israel Search for more papers by this author Wolfgang J Köstler Biological Regulation, Present address: Medicine 1 & Comprehensive Cancer Center, Medical University Vienna, Austria Natali Molotski Chemistry, Jonathan M Tsai Rita Krauthgamer Immunology,...
Peripartum cardiomyopathy (PPCM) is an idiopathic form of pregnancy-induced heart failure associated with preeclampsia. Circulating factors in late pregnancy are thought to contribute both diseases, suggesting a common underlying pathophysiological process. However, what drives this process remains unclear. Using serum proteomics, we identified the senescence-associated secretory phenotype (SASP), marker cellular senescence biological aging, as most highly up-regulated pathway young women...
The anterior heart field (AHF) encompasses a niche in which mesoderm-derived cardiac progenitors maintain their multipotent and undifferentiated nature response to signals from surrounding tissues. Here, we investigate the signaling mechanism that promotes shift proliferating differentiating cardiomyocytes chick embryos. Genomic systems biology approaches, as well perturbations of molecules, vitro vivo, reveal tight crosstalk between bone morphogenetic protein (BMP) fibroblast growth factor...
Some cancers showed decreased abundance of a subset EGF-regulated microRNAs, which allows the production oncogenic transcription factors.
Single-cell RNA-seq has become routine for discovering cell types and revealing cellular diversity, but archived human brain samples still pose a challenge to current high-throughput platforms. We present STRT-seq-2i, an addressable 9600-microwell array platform, combining sampling by limiting dilution or FACS, with imaging high throughput at competitive cost. applied the platform fresh single mouse cortical cells frozen post-mortem nuclei, matching performance of previous lower-throughput...
Preeclampsia is a multisystemic, pregnancy-specific disorder united by new-onset hypertension but with considerable variation in clinical manifestation, onset, and severity. For symptoms to regress, delivery of the placenta required. required, making central preeclampsia pathophysiology. To dissect which placental functions were impacted two forms preeclampsia, we studied molecular changes across cell types placenta.We performed transcriptomic survey single-cells single-nuclei on cases...
The mouse brain is by far the most intensively studied among mammalian brains, yet basic measures of its cytoarchitecture remain obscure. For example, quantifying cell numbers, and interplay sex, strain, individual variability in density volume out reach for many regions. Allen Mouse Brain Connectivity project produces high-resolution full images hundreds brains. Although these were created a different purpose, they reveal details neuroanatomy cytoarchitecture. Here, we used this population...
Abstract Signal transduction by receptor tyrosine kinases (RTKs) and nuclear receptors for steroid hormones is essential body homeostasis, but the cross-talk between these families poorly understood. We observed that glucocorticoids inhibit signalling downstream of EGFR, an RTK. The underlying mechanism entails suppression EGFR’s positive feedback loops simultaneous triggering negative normally restrain EGFR. Our studies in mice reveal regulation translates to circadian control EGFR...