GEO DataSets

Analysis of induced dopaminergic (iDA) neurons generated from E14.5 mouse embryonic fibroblasts (MEFs) reprogrammed by infection with lentiviruses expressing dopaminergic transcription factors Ascl1, Lmx1a and Nurr1. Results provide insight into the molecular basis of MEF to iDA reprogramming.

Organism:

Mus musculus

Type:

Expression profiling by array, transformed count, 2 genotype/variation sets

Platform:

GPL6246

Series:

GSE27174

8 Samples

Download data: CEL

(Submitter supplied) Lineage-specific transcription factors, which drive cellular identity during embryogenesis, have been shown to convert cell fate when express ectopically in heterologous cells. Herein, we screened the key molecular factors governing the dopaminergic neuronal specification during brain development for their ability to generate similar neurons directly from mouse and human fibroblasts. Remarkably, we found a minimal set of three factors Mash1, Nurr1 and Lmx1a/b able to elicit such cellular reprogramming. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS4155

Platform:

GPL6246

8 Samples

Download data: CEL

(Submitter supplied) Suppression of P53 in conjunction with cell cycle arrest at G1 and appropriate extracellular environment markedly increases the efficiency in the transdifferentiation of human fibroblasts to iDA neurons bt Ascl1, Nurr1, Lmx1a and miR-124.

Organism:

Homo sapiens

Type:

Genome variation profiling by genome tiling array

Platform:

GPL4091

1 Sample

Download data: TXT

(Submitter supplied) Direct lineage reprogramming represents a remarkable conversion of cellular and transcriptome states. However, the intermediates through which individual cells progress are largely undefined. Here we used single cell RNA-seq at multiple time points to dissect direct reprogramming from mouse embryonic fibroblasts (MEFs) to induced neuronal (iN) cells. By deconstructing heterogeneity at each time point and ordering cells by transcriptome similarity rather than time we reconstructed a continuous reprogramming path. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL19057 GPL13112

405 Samples

Download data: TXT

(Submitter supplied) Forced expression of ASCL1, Nurr1, Lmx1a, miRNA-124 and p53shRNA (ANLmp) in fibroblasts reprograms fibroblasts to induced dopaminergic neurons (iDA). While human lung fibroblasts can be converted rapidly and efficiently, iDA of dermal fibroblast is very unefficient and incompleted. To address this issue,  we performed time series RNAseq on both lung and dermal fibroblasts during the first several days of ANLmp induced neuron convertion. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17303

8 Samples

Download data: CSV

(Submitter supplied) Forced expression of ASCL1, Nurr1, Lmx1a, miRNA-124 and p53shRNA (ANLmp) in fibroblasts reprograms fibroblasts to induced dopaminergic neurons (iDA). While human lung fibroblasts can be converted rapidly and efficiently, iDA of dermal fibroblast is very unefficient and incompleted. To address this issue,  we performed time series RNAseq on both lung and dermal fibroblasts during the first four days of ANLmp induced neuron convertion. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

8 Samples

Download data: TXT

(Submitter supplied) Here we reveal a hierarchical mechanism in the direct conversion of fibroblasts into induced neuronal (iN) cells mediated by the transcription factors Ascl1, Brn2, and Myt1l.

Organism:

Homo sapiens; Mus musculus

Type:

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

Platforms:

GPL13112 GPL11154 GPL15103

38 Samples

Download data: BED, TXT

(Submitter supplied) Retinal ganglion cells (RGCs) are the projection neurons in the retina that connect the visual sensing tissue to the brain. We found that Ascl1/Brn3b/Isl1 transcription factor combination can quickly and efficiently reprogramming mouse embryonic fibroblasts (MEFs) into retinal ganglion cell-like neurons (iRGCs). Using RNA-seq, we analyzed the transcriptomes of MEFs infected with Ascl1/Brn3b/Isl1-overexpressing viruses on day 2 or day 7 of reprogramming, or the final iRGCs on day 13 of reprogramming.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

23 Samples

Download data: XLSX

(Submitter supplied) Mouse embryonic fibroblasts were reprogrammed into retinal ganglion cell-like neurons by overexpressing Ascl1/Brn3b/Isl1 transcription factor combination in 13 days.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

6 Samples

Download data: TXT

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

Organism:

Mus musculus

Type:

Expression profiling by array; Non-coding RNA profiling by array

Platforms:

GPL6867 GPL19970

37 Samples

Download data: TXT

(Submitter supplied) Specific neuronal types derived from embryonic stem cells (ESCs) can facilitate mechanistic studies and potentially aid in regenerative medicine. Existing induction methods, however, mostly rely on the effects of growth factors, which generally tend to result in mixed populations of neurons. Here we report that over-expression of specific transcription factors (TFs) in ESCs can rather guide the differentiation of ESCs towards specific neuron types. more...

Organism:

Mus musculus

Type:

Non-coding RNA profiling by array

Platform:

GPL19970

11 Samples

Download data: TXT

(Submitter supplied) Specific neuronal types derived from embryonic stem cells (ESCs) can facilitate mechanistic studies and potentially aid in regenerative medicine. Existing induction methods, however, mostly rely on the effects of growth factors, which generally tend to result in mixed populations of neurons. Here we report that over-expression of specific transcription factors (TFs) in ESCs can rather guide the differentiation of ESCs towards specific neuron types. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6867

26 Samples

Download data: TXT

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

Organism:

Mus musculus

Type:

Expression profiling by array; Non-coding RNA profiling by array

Platforms:

GPL10787 GPL24547

30 Samples

Download data: TXT

(Submitter supplied) Small-RNA profiling of mouse embryonic, epiblast-derived, stem cells (epiSC). epiSC differentiated towards the dopaminergic phenotype were compared to control untreated epiSC. EpiSc were derived from a Pitx3-GFP mouse allowing visualization of dopaminergic (GFP+) differentiation efficiency.

Organism:

Mus musculus

Type:

Non-coding RNA profiling by array

Platform:

GPL24547

15 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of mouse embryonic, epiblast-derived, stem cells (epiSC). epiSC differentiated towards the dopaminergic phenotype were compared to control untreated epiSC. EpiSc were derived from a Pitx3-GFP mouse allowing visualization of dopaminergic (GFP+) differentiation efficiency.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL10787

15 Samples

Download data: TXT

(Submitter supplied) The orphan nuclear receptor Nurr1 has been shown to be critical for the development of ventral midbrain dopaminergic neurons. Consequently, the development of ES cells overexpressing Nurr1 has raised hope for the development of cell replacement therapies for Parkinson's Disease to replace degenerated dopaminergic neurons. However, the molecular consequences of Nurr1 on gene expression in these cells remain unknown. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS2027

Platform:

GPL81

4 Samples

Download data

Expression profiling of neural stem cell lines overexpressing the orphan nuclear receptor Nurr1. Nurr1 is critical for the development of the ventral midbrain dopaminergic neurons, the cells primarily lost in Parkinson's disease.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 2 genotype/variation, 2 other sets

Platform:

GPL81

Series:

GSE3571

4 Samples

Download data

(Submitter supplied) The common marmoset (marmoset; Callithrix jacchus) has been attracting much attention especially in the research fields of biomedical science and neuroscience, because of its potential to recapitulate the complex and multidimensional phenotypes of human diseases. Taking these advantages, several transgenic models have been reported so far. However, there remain several issues such as (i) it takes years to generate the late-onset disease models, and (ii) the onset age and severity of phenotypes can vary among individual animals due to their differences in the genetic background. more...

Organism:

Callithrix jacchus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28659

10 Samples

Download data: TXT

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

Organism:

Homo sapiens; Rattus norvegicus

Type:

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

Platforms:

GPL25584 GPL18573

40 Samples

Download data: BW

(Submitter supplied) Remodeling of chromatin accessibility is necessary for successful reprogramming of fibroblasts to neurons. However, it is still not fully known which transcription factors can induce a neuronal chromatin accessibility profile when overexpressed in fibroblasts. To identify such transcription factors, we here used ATAC-sequencing to generate differential chromatin accessibility profiles between human fibroblasts and iNeurons, an in vitro neuronal model system obtained by overexpression of Neurog2 in induced pluripotent stem cells (iPSCs). more...

Organism:

Rattus norvegicus; Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL25584 GPL18573

20 Samples

Download data: BW