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Select item 2001529891.

A method for spatially resolved tissue transcriptomics applied to the mouse and lizard P. vitticeps brains

(Submitter supplied) We have developed an imaging-free framework to localize nucleic acids within a tissue by combining a compressed sensing tissue-sampling strategy based on multi-angle-sectioning and an associated image reconstruction algorithm. Initially, the tissue is cut into consecutive thin slices. Subsequently these are further sliced along an orthogonal plane at predefined orientations resulting in tissue strips that are subject to RNA sequencing. more...

Organism:: Mus musculus; Pogona vitticeps

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL28731 GPL13112
1200 Samples

Download data: TAB

Series

Accession:: GSE152989

ID:: 200152989

SRA Run Selector

Select item 2000661972.

Study of mechanisms by which Liver X Receptors regulate mouse midbrain dopaminergic neuron development

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

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL13112
20 Samples

Download data: WIG

Series

Accession:: GSE66197

ID:: 200066197

Select item 2000661603.

RNA-seq on mouse E11.5 ventral midbrain neurosphere cultures treated with the LXR agonist GW3965 and the GSK3beta inhibitor CT99021

(Submitter supplied) We investigated mechanisms by which LXRs regulate midbrain dopaminergic neuron development. Using a systems biology approach, we found that LXR interacts with β-catenin and that LXR activation inhibits the activity of the Wnt/β-catenin pathway

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13112
12 Samples

Download data: TAB

Series

Accession:: GSE66160

ID:: 200066160

SRA Run Selector

Select item 2000661184.

ChIP-Seq for LXR in the mouse substantia nigra midbrain dopaminergic cell line SN4741 treated with the synthetic LXR ligand GW3965 for 1.5 hours

Organism:: Mus musculus

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL13112
8 Samples

Download data: WIG

Series

Accession:: GSE66118

ID:: 200066118

SRA Run Selector

Select item 2001351815.

A cell fitness selection model for neuronal survival during development

(Submitter supplied) Developmental cell death plays an important role in the construction of functional neural circuits. In vertebrate, the canonical view proposes a selection of the surviving neurons through stochastic competition for target-derived neurotrophic signals, implying an equal potential for neurons to compete. Here we show an alternative cell fitness selection of neurons that is defined by a specific neuronal heterogeneity code. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13112
2 Samples

Download data: TAB

Series

Accession:: GSE135181

ID:: 200135181

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001309506.

RNA-seq data of PatchSeq dataset from Pvalb-Cre positive interneurons in the mouse hippocamus CA1 region

(Submitter supplied) This study takes on the problem of bridging transcriptional data to neuronal phenotype and function by using publicly available datasets characterizing distinct neuronal populations based on gene expression, electrophysiology and morphology. In addition, a non-published PatchSeq dataset of Pvalb-cre positive cells in CA1 was used, which is the dataset submitted here. Taken together, these datasets were used to identify cross-cell type correlations between these data modalities. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing; Third-party reanalysis

Platform:: GPL17021
19 Samples

Download data: TXT

Series

Accession:: GSE130950

ID:: 200130950

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001206297.

Single cell data of microglia and perivascular macrophages identified from a single cell RNAseq analysis of mouse brain tissue.

(Submitter supplied) Single cell sequencing of microglia and perivascular macrophages was performed on brain tissue from different brain regions to obtain single cell expression profiles dependent on celltype and regional location.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13112
425 Samples

Download data: CSV

Series

Accession:: GSE120629

ID:: 200120629

PubMed Similar studies SRA Run Selector

Select item 2001173948.

Molecular analysis of the midbrain dopaminergic niche during neurogenesis

(Submitter supplied) Midbrain dopaminergic (mDA) neurons degenerate in Parkinson's disease and are one of the main targets for cell replacement therapies. A comprehensive view of the signals and cell types contributing to mDA neurogenesis is not yet available. By analyzing the transcriptome of the mouse ventral midbrain at tissue and single-cell level during mDA neurogenesis we found that three recently identified radial glia types (Rgl 1-3) contribute to different key aspects of mDA neurogenesis. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13112
60 Samples

Download data: TSV

Series

Accession:: GSE117394

ID:: 200117394

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001146709.

Single cell RNA-seq of the human long-term self-renewing neuroepithelial-like stem cell line SAI2

(Submitter supplied) The transcriptome of single long-term self-renewing neuroepithelial-like stem cells (LT-NES) was studied in order to establish a baseline for investigations into modules of synergistically active transcription factors that determine developmental cell subpopulations

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL11154
288 Samples

Download data: TAB

Series

Accession:: GSE114670

ID:: 200114670

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20011071410.

RNA-seq of miR-183 knockout mouse dorsal root ganglia

(Submitter supplied) To identify the mechanism by which the miR-183 cluster works to cause change of the fate of early dorsal root ganglion progenitor cells, we compared RNA expression in E12.5 lumbar dorsal root ganglia from the miR conditional knockout mice to control mice

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL11002
6 Samples

Download data: CSV

Series

Accession:: GSE110714

ID:: 200110714

PubMed Similar studies SRA Run Selector

Select item 20011924811.

PatchSeq analysis of Pthlh expressing cells of the mouse dorsolateral striatum

(Submitter supplied) In order to investigate how electrophysiological properties vary within the Pthlh population in the dorsolateral striatum we performed PatchSeq analysis of neurons labeled in 5HT3a(EGFP) and Pvalb(cre)::RCE/tdTomato mouse lines, which included Th, Npy/Mia, Cck, and Cck/Vip expressing cells.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13112
98 Samples

Download data: TAB

Series

Accession:: GSE119248

ID:: 200119248

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20010670812.

Single cell RNA sequencing of interneurons of the mouse dorsolateral striatum

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

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platforms:: GPL21103 GPL13112
4637 Samples

Download data

Series

Accession:: GSE106708

ID:: 200106708

PubMed Full text in PMC Similar studies

Select item 20010670713.

Single cell RNA sequencing of interneurons of the mouse dorsolateral striatum II

(Submitter supplied) In order to investigate age-dependent mRNA expression in mouse striatal interneurons, we performed single cell RNA-seq on FACS-isolated fluorescently labeled cells from the dorsal striatum of two mouse lines, 5ht3aEGFP or Lhx6cre::R26R-tdTomat, from either P21-26 or P55-76 animals. We included the ventricular side of the striatum that contains adult born neuroblasts destined for the olfactory bulb.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL21103
3417 Samples

Download data: TAB

Series

Accession:: GSE106707

ID:: 200106707

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20009747814.

Single cell RNA sequencing of interneurons of the mouse dorsolateral striatum I

(Submitter supplied) In this study we performed single-cell sequencing of striatal interneurons, revealing striatal populations as well as the relation to their telencephalic counterparts

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13112
1122 Samples

Download data: TXT

Series

Accession:: GSE97478

ID:: 200097478

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20011581315.

Metabolic labeling of Hek293 cells using 4-thiouracil

(Submitter supplied) Hek293 cells were metabolically labelled using 4-thiouracil as described in (Schwalb et al, Science. 2016 Jun 3;352(6290):1225-8) but without fragmentation, and then bulk RNA was prepared for sequencing using the STRT method (Islam et al, Genome Res. 2011 Jul;21(7):1160-7). Samples were incubated in duplicate for 5, 15 and 30 minutes and included an unlabeled control representing the steady-state expression state.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL11154
32 Samples

Download data: TAB

Series

Accession:: GSE115813

ID:: 200115813

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20009988816.

Single‐cell transcriptomic analysis of mouse CA1 inhibitory neurons

(Submitter supplied) We studied the transcriptomes of mouse CA1 inhibitory cells. Novel clustering methods identified all 23 previously described CA1 inhibitory types, while also suggesting 6 new inhibitory classes. Latent‐factor analysis revealed a common continuum of expression of many genes within and between classes, which we hypothesized correlates with a continuum from faster‐spiking cells that proximally target pyramidal cells, to slower active cells targeting pyramidal distal dendrites or interneurons.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17021
6971 Samples

Download data: MAT, TAB, TXT

Series

Accession:: GSE99888

ID:: 200099888

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20010384017.

Single-cell RNA sequencing of sensory neurons in the mouse dorsal horn

(Submitter supplied) We have used large-scale single-cell RNA sequencing (RNA-seq) to classify sensory neurons in the mouse dorsal horn, with the purpose of identifying neuronal subclasses, in particular making a systematic and comprehensive molecular classification of spinal cord sensory neurons, providing the neuronal basis for somatic sensation.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13112
1545 Samples

Download data: XLSX

Series

Accession:: GSE103840

ID:: 200103840

PubMed Similar studies SRA Run Selector

Select item 20010998918.

Mouse bone marrow inDrop

(Submitter supplied) Single-cell RNA-seq measurements of the normal mouse bone marrow cells using inDrop protocol

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL19057
1 Sample

Download data: CSV

Series

Accession:: GSE109989

ID:: 200109989

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20010432319.

Transcriptome analysis of single cells from the developing mouse dentate gyrus

(Submitter supplied) RNA sequencing was performed on 24185 single cells from dentate gyrus of CD-1, C57Bl/6, or hGFAP-GFP reporter mice, sampled at ages ranging from embryonal day 16.5 to postnatal day 132, with the aim of comparing peri- and postnatal neurogenesis in the dentate gyrus

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL21103
232 Samples

Download data: TAB, TXT

Series

Accession:: GSE104323

ID:: 200104323

PubMed Similar studies SRA Run Selector

Select item 20009575220.

Transcriptome analysis of single cells from the mouse dentate gyrus [C1]

(Submitter supplied) RNA sequencing was performed on 2303 single cells from dentate gyrus of CD-1 and hGFAP-GFP reporter mice, sampled at 17 time points from P8 to P68, with the aim of delineating the distinct cellular states along the granule cell lineage.

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13112
2303 Samples

Download data: TAB, TXT

Series

Accession:: GSE95752

ID:: 200095752

PubMed Similar studies SRA Run Selector

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