Similar studies for GEO DataSets (Select 200225069) - GEO DataSets

Select item 2002250691.

Evaluating the mouse neural precursor line, SN4741, as a suitable proxy for midbrain dopaminergic neurons [ATAC-seq]

(Submitter supplied) To overcome the ethical and technical limitations of in vivo human disease models, the broader scientific community frequently employs model organism-derived cell lines to investigate of disease mechanisms, pathways, and therapeutic strategies. Despite the widespread use of certain in vitro models, many still lack contemporary genomic analysis supporting their use as a proxy for the affected human cells and tissues. more...

Organism:: Mus musculus

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

Platform:: GPL24247
8 Samples

Download data: XLS

Series

Accession:: GSE225069

ID:: 200225069

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Select item 2002250842.

Evaluating the mouse neural precursor line, SN4741, as a suitable proxy for midbrain dopaminergic neurons

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

Organism:: Mus musculus

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

Platform:: GPL24247
28 Samples

Download data: MTX, TSV, XLS

Series

Accession:: GSE225084

ID:: 200225084

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Select item 2002250823.

Evaluating the mouse neural precursor line, SN4741, as a suitable proxy for midbrain dopaminergic neurons [Hi-C]

(Submitter supplied) To overcome the ethical and technical limitations of in vivo human disease models, the broader scientific community frequently employs model organism-derived cell lines to investigate of disease mechanisms, pathways, and therapeutic strategies. Despite the widespread use of certain in vitro models, many still lack contemporary genomic analysis supporting their use as a proxy for the affected human cells and tissues. more...

Organism:: Mus musculus

Type:: Other

Platform:: GPL24247
4 Samples

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Series

Accession:: GSE225082

ID:: 200225082

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Select item 2002250764.

Evaluating the mouse neural precursor line, SN4741, as a suitable proxy for midbrain dopaminergic neurons [scRNA-seq]

(Submitter supplied) To overcome the ethical and technical limitations of in vivo human disease models, the broader scientific community frequently employs model organism-derived cell lines to investigate of disease mechanisms, pathways, and therapeutic strategies. Despite the widespread use of certain in vitro models, many still lack contemporary genomic analysis supporting their use as a proxy for the affected human cells and tissues. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24247
8 Samples

Download data: MTX, TSV

Series

Accession:: GSE225076

ID:: 200225076

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Select item 2002250715.

Evaluating the mouse neural precursor line, SN4741, as a suitable proxy for midbrain dopaminergic neurons [Bulk RNA-seq]

(Submitter supplied) To overcome the ethical and technical limitations of in vivo human disease models, the broader scientific community frequently employs model organism-derived cell lines to investigate of disease mechanisms, pathways, and therapeutic strategies. Despite the widespread use of certain in vitro models, many still lack contemporary genomic analysis supporting their use as a proxy for the affected human cells and tissues. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24247
8 Samples

Download data: TXT

Series

Accession:: GSE225071

ID:: 200225071

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Select item 2001224506.

Parkinson-associated SNCA enhancer variants revealed by open chromatin in mouse dopamine neurons

(Submitter supplied) The progressive loss of midbrain (MB) dopaminergic (DA) neurons defines the motor features of Parkinson disease (PD) and modulation of risk by common variation in PD has been well established through GWAS. Anticipating that a fraction of PD-associated genetic variation mediates their effects within this neuronal population, we acquired open chromatin signatures of purified embryonic mouse MB DA neurons. more...

Organism:: Mus musculus

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

Platforms:: GPL16417 GPL17021
15 Samples

Download data: TXT

Series

Accession:: GSE122450

ID:: 200122450

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Select item 2001530057.

Dynamic landscape of chromatin accessibility and transcriptomic changes during differentiation of human embryonic stem cells into dopaminergic neurons

(Submitter supplied) We profiled chromatin accessibility and gene expression changes along the differentiation of human pluripotent stem cells to dopaminergic neurons. We integrated the epigenomic and transcriptomic profiles to infer the activity of transcription factors (TFs) and DNA regulatory regions such as enhancers and long non-coding RNAs.

Organism:: Homo sapiens

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

Platforms:: GPL16791 GPL15520
13 Samples

Download data: BW, TXT

Series

Accession:: GSE153005

ID:: 200153005

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Select item 2002493608.

Single-cell transcriptomics and in vitro lineage tracing reveals differential susceptibility of human iPSC-derived midbrain dopaminergic neurons in a cellular model of Parkinson’s disease.

(Submitter supplied) Advances in stem cell technologies open up new avenues for modelling development and diseases. The success of these pursuits however rely on the use of cells most relevant to those targeted by the disease of interest, for example, midbrain dopaminergic neurons for Parkinson’s disease. In the present study, we report the generation of a human induced pluripotent stem cell (iPSC) line capable of purifying and tracing nascent midbrain dopaminergic progenitors and their differentiated progeny via the expression of a Blue Fluorescent Protein (BFP). more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
6 Samples

Download data: CSV, TSV

Series

Accession:: GSE249360

ID:: 200249360

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Select item 2002476009.

Single-cell transcriptomics and in vitro lineage tracing reveals differential susceptibility of human iPSC-derived midbrain dopaminergic neurons in a cellular model of Parkinson’s disease

(Submitter supplied) Advances in stem cell technologies open up new avenues for modelling development and diseases. The success of these pursuits however rely on the use of cells most relevant to those targeted by the disease of interest, for example, midbrain dopaminergic neurons for Parkinson’s disease. In the present study, we report the generation of a human induced pluripotent stem cell (iPSC) line capable of purifying and tracing nascent midbrain dopaminergic progenitors and their differentiated progeny via the expression of a Blue Fluorescent Protein (BFP). more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20301
8 Samples

Download data: CSV, TSV

Series

Accession:: GSE247600

ID:: 200247600

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Select item 20003744610.

Sequential stage specific reporter line analysis (SSRLA) of 3 BAC transgenic mESC lines

(Submitter supplied) FACS purified cells from differentiation day 14-15 cells from 3 BAC transgenic mESC lines: Hes::GFP (early), Nurr1::GFP (mid), and Pitx3::YFP (late) DA neuron development reporter lines

Organism:: Mus musculus

Type:: Expression profiling by array

Platform:: GPL13824
18 Samples

Download data: TXT

Series

Accession:: GSE37446

ID:: 200037446

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Select item 20010891711.

LncRNAs and open chromatin regions constitute midbrain dopaminergic neuron- specific molecular signatures

(Submitter supplied) Midbrain dopaminergic (DA) neurons are involved in diverse neurological functions, including control of movements, emotions or reward. In return, their dysfunctions cause severe clinical manifestations in humans, such as the appearance of motor and cognitive symptoms in Parkinson’s Disease. The physiology and pathophysiology of these neurons are widely studied, mostly with respect to molecular mechanisms implicating protein-coding genes. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:: GPL19057
11 Samples

Download data: BROADPEAK, XLSX

Series

Accession:: GSE108917

ID:: 200108917

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Select item 20020479612.

Human midbrain dopaminergic neuronal differentiation markers predict cell therapy outcome in a Parkinson's disease model

(Submitter supplied) Human pluripotent stem cell (hPSC)-based replacement therapy holds great promise in treating Parkinson’s disease (PD). However, the heterogeneity of hPSC-derived donor cells and the low yield of midbrain dopaminergic (mDA) neurons after transplantation hinder its broad clinical application. Here, we depicted the single-cell molecular landscape during mDA neuron differentiation. We found that this process recapitulated the development of multiple but adjacent fetal brain regions including ventral midbrain, isthmus, and ventral hindbrain, resulting in heterogenous donor cell population. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20301
9 Samples

Download data: MTX, TSV

Series

Accession:: GSE204796

ID:: 200204796

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Select item 20020479513.

Human midbrain dopaminergic neuronal differentiation markers predict cell therapy outcome in a Parkinson's disease model

(Submitter supplied) Human pluripotent stem cell (hPSC)-based replacement therapy holds great promise in treating Parkinson’s disease (PD). However, the heterogeneity of hPSC-derived donor cells and the low yield of midbrain dopaminergic (mDA) neurons after transplantation hinder its broad clinical application. Here, we depicted the single-cell molecular landscape during mDA neuron differentiation. We found that this process recapitulated the development of multiple but adjacent fetal brain regions including ventral midbrain, isthmus, and ventral hindbrain, resulting in heterogenous donor cell population. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20301
12 Samples

Download data: RDS

Series

Accession:: GSE204795

ID:: 200204795

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Select item 20015758914.

Identification of genes regulated by Fer2 in PAM neurons using an overexpression approach

(Submitter supplied) The transcription factor Fer2 plays a neuroprotective role in the dopaminergic neurons of the fly brain, but the underlying molecular mechanisms are not understood. By performing RNA-seq on isolated dopaminergic PAM neurons after Fer2 constitutive overexpression, we identified over one hundred genes differentially regulated in response to PAM-specific Fer2 overexpression.

Organism:: Drosophila melanogaster

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17275
6 Samples

Download data: XLSX

Series

Accession:: GSE157589

ID:: 200157589

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Select item 20015689315.

Fer2 in the fly brain

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

Organism:: Drosophila melanogaster

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

Platform:: GPL17275
22 Samples

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Series

Accession:: GSE156893

ID:: 200156893

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Select item 20015689216.

Genome-wide map of the binding sites of the transcription factor Fer2 in the fly brain

(Submitter supplied) The transcription factor Fer2 plays a neuroprotective role in the dopaminergic neurons of the fly brain, but the underlying molecular mechanisms are not understood. By using chromatin immunoprecipitation coupled to sequecing (ChIP-seq), we identified over 250 genomic binding sites bound by Fer2 in the fly brain. Combining this dataset with RNA-seq of fly heads upon inducible Fer2 overexpression, we obtained a list of 26 direct target genes, bound and regulated by Fer2.

Organism:: Drosophila melanogaster

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

Platform:: GPL17275
4 Samples

Download data: TXT

Series

Accession:: GSE156892

ID:: 200156892

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Select item 20015689017.

Identification of genes regulated by Fer2 in the fly brain using an overexpression approach

(Submitter supplied) The transcription factor Fer2 plays a neuroprotective role in the dopaminergic neurons of the fly brain, but the underlying molecular mechanisms are not understood. By performing RNA-seq on fly heads after Fer2 inducible overexpression, we identified hundreds of genes differentially regulated in response to Fer2 overexpression. Combining this dataset with Fer2 ChIP-seq on the fly head, we obtained a list of 26 direct target genes, bound and regulated by Fer2.

Organism:: Drosophila melanogaster

Type:: Expression profiling by high throughput sequencing

Platform:: GPL17275
18 Samples

Download data: XLSX

Series

Accession:: GSE156890

ID:: 200156890

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Select item 20010970618.

Parkinson’s Disease Genetic Risk in a Midbrain Neuronal Cell Line

(Submitter supplied) In genome-wide association studies of complex diseases, many risk polymorphisms are found to lie in non-coding DNA and likely confer risk through allele-dependent differences in gene regulatory elements. However, because distal regulatory elements can alter gene expression at various distances on linear DNA, the identity of relevant genes is unknown for most risk loci. In Parkinson’s disease, at least some genetic risk is likely intrinsic to a neuronal subpopulation of cells in the brain regions affected. more...

Organism:: Homo sapiens

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

Platform:: GPL18573
20 Samples

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Series

Accession:: GSE109706

ID:: 200109706

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Select item 20007638119.

Single Cell RNA-seq Study of Midbrain and Dopaminergic Neuron Development in Mouse, Human, and Stem Cells

(Submitter supplied) In order to get a better molecular understanding of human midbrain development, this study defines cell types of the ventral midbrain in both human and mouse as well as stem cell-derived dopaminergic neuron preparations, and reveals the temporal dynamics of key lineages across development and the adult.