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Items: 1 to 20 of 42

1.

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
2.

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
3.

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
4.

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
5.

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
6.

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
7.

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
8.

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
9.

Transcriptome analysis of single cells from the mouse dentate gyrus [10X]

(Submitter supplied) RNA sequencing was performed on 5454 single cells from dentate gyrus of CD-1 mice, sampled at postnatal day 12, 16, 24 and 35, with the aim of studying the postnatal dentate gyrus neurogenesis.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL17021
5454 Samples
Download data: TAB
Series
Accession:
GSE95315
ID:
200095315
10.

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
Series
Accession:
GSE95752
ID:
200095752
11.

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
12.

Transcriptome analysis of single cells from the mouse dentate gyrus

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL13112 GPL17021 GPL21103
7989 Samples
Download data
Series
Accession:
GSE95753
ID:
200095753
13.

A novel addressable 9600-microwell array single cell RNA-seq method applied on fresh mouse cortical cells and frozen human cortical nuclei

(Submitter supplied) We adopted the STRT-seq [Islam et al., Nat Methods 11, 163-166 (2013)] RNA-seq technology to a 9600-well array and applied it to analyze single cells from mouse and human cortex single cells.
Organism:
Mus musculus; Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL11154 GPL13112
4220 Samples
Download data: XLSX
Series
Accession:
GSE101601
ID:
200101601
14.

Non-synchronized cell cycle transcriptomics in U2OS and HeLa cancer cells

(Submitter supplied) Sorting U2OS and HeLa cells genetically modified with the Fucci System allowed us to separate cells according to cell cycle progression followed by RNA Sequencing to characterize the oscillating transcriptome in cells without the need for chemical synchronization.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
15 Samples
Download data: CSV
Series
Accession:
GSE104736
ID:
200104736
15.

A general transcription co-factor, Smad3, potentiates master transcription factor mediated cell identity conversions [ATAC-seq]

(Submitter supplied) We have identified that expression of constitutive active Smad3 (Smad3CA) significantly enhanced reprogramming by Oct4, Sox2, Klf4, c-Myc. To investigate how Smad3CA expression impacts on chromatin opening, we performed ATAC-seq on day 3 of reprogramming in the presence or absence of Smad3CA expression.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL13112
8 Samples
Download data: BIGWIG
Series
Accession:
GSE85175
ID:
200085175
16.

A general transcription co-factor, Smad3, potentiates master transcription factor mediated cell identity conversions [ChIP-seq]

(Submitter supplied) We have identified that expression of constitutive active Smad3 (Smad3CA) significantly enhanced reprogramming by Oct4, Sox2, Klf4, c-Myc. Smad3 is known to interact with several master transcription factors and boost their activity during development. Therefore, we hypothesized that Smad3CA is recruited to Oct4 binding sites during reprogramming. To test this hypothesis, we investigated genome-wide Smad3 binding sites in the presence and absence of reprogramming factor expression.
Organism:
Mus musculus
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL13112
13 Samples
Download data: BIGWIG, BROADPEAK, GAPPEDPEAK, NARROWPEAK, TAB, TSV
Series
Accession:
GSE85177
ID:
200085177
17.

SMAD2/3 potentiate cell identity conversions with master transcription factors

(Submitter supplied) The exogenous expression of master transcription factors (TFs) is a powerful and exciting approach to convert cellular identity. Yet, the generation of desired cell types is often plagued by inefficiency, slow kinetics and inability to produce mature cell types. Through investigations of the molecular mechanisms of induced plurpipotent stem cell generation, we discovered that expression of constitutively active Smad2/3 (Smad2CA/3CA), together with the Yamanaka factors, could dramatically improve the efficiency and kinetics of reprogramming. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL13112
84 Samples
Download data: TXT
Series
Accession:
GSE72596
ID:
200072596
18.

A general transcription co-factor, Smad3, potentiates master transcription factor mediated cell identity conversions

(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
105 Samples
Download data: BIGWIG
Series
Accession:
GSE85178
ID:
200085178
19.

Transcriptome analysis of human immortilized astrocytes reprogrammed into dopaminergic neurons

(Submitter supplied) We directly reprogram human astrocytes (hIA) in vitro into induced dopaminergic neurons (iDAs). This process requires three transcription factors, NEUROD1, ASCL1 and LMX1A as well as one microRNA, mir218. This combined protocol gives rise to human astrocyte-derived iDAs with appropriate midbrain markers as defined by analyzing markers derived from human embryonic ventral midbrain samples at 7 and 9 weeks of age.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL11154
12 Samples
Download data: TAB
Series
Accession:
GSE93528
ID:
200093528
20.

Single-cell mRNA isoform diversity in the mouse brain

(Submitter supplied) Single-cell isoform regulation is increasingly being studied. To get a full view of alternative isoform usage, from transcription start site and alternative splicing to transcription termination site, full-length sequences have to be studied. Here we use PacBio long read sequencing technology combined with unique molecular identities to get a full and accurate picture of alternative isoform usage of different stages in maturing oligodendrocyte single cells. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19704
6 Samples
Download data: TXT
Series
Accession:
GSE76026
ID:
200076026
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