GEO DataSets

(Submitter supplied) Preterm infants are at risk for brain injury and long term neurodevelopmental impairment due, in part, to white matter injury following chronic hypoxia exposure. However, the precise molecular mechanisms by which perinatal hypoxia disrupts early neurodevelopment are poorly understood. Here, we constructed a brain-wide map of the regenerative response to newborn brain injury using high resolution imaging-based spatial transcriptomics (MERFISH) to analyze over 1.3 million cells in a mouse model of chronic neonatal hypoxia. more...

Organism:

Mus musculus; synthetic construct

Type:

Other

Platform:

GPL31217

6 Samples

Download data: CSV

(Submitter supplied) Age-related myelin damage induces inflammatory responses, yet its involvement in Alzheimer's disease remains uncertain, despite age being a major risk factor. Using a mouse model of Alzheimer's disease, we found that amyloidosis itself triggers age-related oligodendrocyte and myelin damage. Mechanistically, CD8+ T cells promote the progressive accumulation of abnormally interferon-activated microglia that display myelin-damaging activity. more...

Organism:

synthetic construct; Mus musculus

Type:

Other

Platform:

GPL31217

5 Samples

Download data: CSV, TXT

(Submitter supplied) ANKRD11 (Ankyrin Repeat Domain 11) is a chromatin regulator and a risk gene for KBG syndrome, a rare developmental disorder characterized by multiple organ abnormalities, including cardiac defects. However, the role of ANKRD11 in heart development is unknown. The neural crest plays a leading role in embryonic heart development, and its dysfunction is implicated in congenital heart defects. We demonstrate conditional knockout of Ankrd11 in the murine embryonic neural crest results in persistent truncus arteriosus, ventricular dilation, and impaired ventricular contractility. more...

Organism:

Mus musculus; synthetic construct

Type:

Other

Platform:

GPL31217

6 Samples

Download data: CSV, TAR

(Submitter supplied) The heterogeneity of embryonic endothelial cells (ECs) especially the distinction of arteriovenous ECs remains incompletely characterized. We established a mouse single-EC transcriptomic landscape at mid-to-late gestation stage and identified 19 subclusters, including Etv2+Bnip3+ early ECs and 2 specialized ECs. Most of these subtypes were grouped by their vascular-bed types, while ECs from brain, heart and liver were grouped by their tissue origins. more...

Organism:

Mus musculus; synthetic construct

Type:

Other

Platform:

GPL31217

3 Samples

Download data: CSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

synthetic construct; Mus musculus

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL31217 GPL28457

1335 Samples

Download data: CSV

(Submitter supplied) Current spatial transcriptomics methods provide molecular and spatial information but no morphological readout. Here, we present STEM - a method that correlates multiplexed error-robust FISH with electron microscopy from neighboring tissue sections of the same sample. STEM links transcriptional and spatial organization of single cells with ultrastructural morphology of the tissue in vivo. Using STEM to characterize demyelinated white-matter lesions allowed us to link morphology of myelin-laden foamy microglia to transcriptional signature. more...

Organism:

synthetic construct; Mus musculus

Type:

Other

Platform:

GPL31217

3 Samples

Download data: CSV, TXT

(Submitter supplied) Peripheral infections can result in neurocognitive changes in many contexts, including after recurrent Group A Streptococcus (GAS) infections in children. To explore the underlying mechanisms, here we used an intranasal inoculation model to analyze nearly 200,000 cells from the mouse olfactory bulb (OB) by multiplexed error-robust fluorescent in situ hybridization (MERFISH). Upon repeated GAS inoculations, endothelial cells (ECs) responded by downregulating blood-brain barrier and extracellular matrix genes. more...

Organism:

synthetic construct; Mus musculus

Type:

Other

Platform:

GPL31217

8 Samples

Download data: CSV, RDS

(Submitter supplied) Microglia are the resident immune cells of the brain, and have critical roles in circuit development and plasticity. During embryonic and postnatal development, microglia exist in multiple transcriptional states. However, it is still poorly understood how these states are established, and whether they are influenced by their cellular environment. Here we show that in the juvenile neocortex, microglia exist in multiple states whose identity and laminar distribution is instructed by the neuronal class identity of local pyramidal neurons. more...

Organism:

Mus musculus; synthetic construct

Type:

Other

Platform:

GPL31217

10 Samples

Download data: TXT

(Submitter supplied) MERFISH probe library was constructed through Vizgen, according to their pipeline.

Organism:

synthetic construct

8 Series

41 Samples

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