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Items: 1 to 20 of 57

1.

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
2.

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
3.

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
4.

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

(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:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL13112
8 Samples
Download data: WIG
Series
Accession:
GSE66118
ID:
200066118
5.

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
6.

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
7.

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
8.

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
9.

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
10.

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
11.

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
12.

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
13.

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
14.

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
15.

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
16.

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
17.

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
18.

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
19.

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
20.

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
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