GEO DataSets

(Submitter supplied) Stem cell engineering and grafting of mesencephalic dopamine (mesDA) neurons provides a promising strategy for brain repair in Parkinson’s disease (PD). However, essential refinement of differentiation protocols will require deeper interrogation of mesDA neuron lineage development. Here we studied neuronal development at the transcriptome-wide expression level by single-cell RNA sequencing of cells expressing the mesDA neuron transcription factor determinant Lmx1a. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

574 Samples

Download data: TAB

(Submitter supplied) Human embryonic and induced pluripotent stem cells are a promising cell source for the future treatment of Parkinson´s disease. It has been shown that mesencephalic dopaminergic (mesDA) neurons arise from the midbrain floor plate in which FOXA2 acts as a key transcription factor. We identified IAP which is specifically co-expressed with FOXA2 positive cells and is suitable to isolate mesDA progenitors utilizing MACS Technolog.The sorted iPSCs were viable, enriched for midbrain specific markers, lacked expression of pluripotency markers, and differentiated into mature dopaminergic neurons in vitro. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17077

27 Samples

Download data: TXT

(Submitter supplied) Stem cell treatments for neurodegenerative diseases are expected to reach clinical trials soon. Most of the approaches currently under development involve transplantation of immature progenitors that subsequently undergo phenotypic and functional maturation in vivo, and predicting the long term graft outcome already at the progenitor stage remains a challenge. Here, we took an unbiased approach to identify predictive markers expressed in dopamine neuron progenitors that correlate with graft outcome in an animal model of Parkinson's disease through gene expression analysis of >30 batches of grafted hESC-derived progenitors. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

15 Samples

Download data: TXT

(Submitter supplied) The differentiation of human pluripotent stem cells (hPSCs) into mesencephalic dopaminergic (mesDA) neurons requires a precise combination of extrinsic factors that recapitulates the in vivo environment and timing. Current methods are capable of generating authentic mesDA neurons after long-term culture in vitro; however, when mesDA progenitors are transplanted in vivo, the resulting mesDA neurons are only minor components of the graft. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

9 Samples

Download data: TXT

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

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL28038 GPL24676

33 Samples

Download data: MTX, TSV

(Submitter supplied) The differentiation of human pluripotent stem cells (hPSCs) into mesencephalic dopaminergic (mesDA) neurons requires a precise combination of extrinsic factors that recapitulates the in vivo environment and timing. Current methods are capable of generating authentic mesDA neurons after long-term culture in vitro; however, when mesDA progenitors are transplanted in vivo, the resulting mesDA neurons are only minor components of the graft. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

6 Samples

Download data: MTX, TSV

(Submitter supplied) The differentiation of human pluripotent stem cells (hPSCs) into mesencephalic dopaminergic (mesDA) neurons requires a precise combination of extrinsic factors that recapitulates the in vivo environment and timing. Current methods are capable of generating authentic mesDA neurons after long-term culture in vitro; however, when mesDA progenitors are transplanted in vivo, the resulting mesDA neurons are only minor components of the graft. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28038

18 Samples

Download data: TXT

(Submitter supplied) To improve the standardization of cell therapies for Parkinson’s disease, methods for the selection and isolation of midbrain dopaminergic progenitors for transplantation are required. To facilitate this we established an expression profile for genes selectively expressed on transplantable midbrain dopaminergic progenitors using microarray analysis.

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

6 Samples

Download data

(Submitter supplied) In this study we performed single-cell sequencing of E12.5 mouse diencephalon revealing different newly generated neurons and their associated molecular features.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

1 Sample

Download data: TXT

(Submitter supplied) To better understand how human pluripotent stem cells (hPSCs) differentiate from progenitor cells into distinct neuronal states, we performed 10x single cell RNA sequencing on in vitro directed differentiation cultures. We established differentiation platforms that model neural induction from human induced pluripotent stem cells (iPSCs) and single cell profiled two systems: 1) co-culture of progenitors and neurons and 2) purified neurons.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

6 Samples

Download data: MTX, TSV

(Submitter supplied) Human pluripotent stem cells (hPSC) offer a unique cellular model to study the molecular details underpinning embryonic development. We profiled single-cell RNA-seq (scRNA-seq) on 957 single cells collected at 6 time points over a 30-day period of non-directed differentiation of human neural progenitor cells (NPC) generated from hESC. Computational and experimental analyses of this comprehensive data set enabled us to: 1) define distinct subpopulations of developing neurons and their specific gene expression patters; 2) elucidate alternative cell developmental trajectories within discrete time points of the differentiating populations; and 3) decipher gene regulatory networks and validated key regulators (transcription factors and lincRNAs) that dictate alternative cell fate specifications. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Download data: TXT

(Submitter supplied) The LIM homeodomain transcription factor Lmx1a is a very potential inducer of stem cells towards dopaminergic neurons. Despite several studies on the function of this gene, the exact in vivo role of Lmx1a in mesodiencephalic dopamine (mdDA) neuronal specification is still not understood. To analyze the genes functioning downstream of Lmx1a, we performed expression microarray analysis of LMX1A overexpressing MN9D dopaminergic cells. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL14726

6 Samples

Download data: TXT

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

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

4556 Samples

Download data

(Submitter supplied) In this study we performed single-cell sequencing of E13.5 mouse cerebella, revealing different newly generated neurons and their associated molecular features.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

1 Sample

Download data: CSV

(Submitter supplied) Purpose: We aimed to reconstruct the development formation of cellular identities' heterogeneity in the hypothalamus with single-cell RNA sequencing. We planned to track branching process of neurogenesis and follow the formation of cell identities. Results: We integrate single-cell RNA-seq data on 51,199 cells of ectodermal origin, representing critical stages of pre- and postnatal hypothalamus development, supported by anatomical lineage reconstruction to show that bulk neurogenesis in the hypothalamus, dominated by Notch signalling and its interaction with Ascl1, persists until the neonatal period to produce molecularly distinct astrocytes, ependyma, tanycytes and 30 protoclusters of neurons. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

8 Samples

Download data: GRAPHML, RDS, TSV

(Submitter supplied) Midbrain dopamine (mDA) neurons constitute a heterogenous group of cells that have been intensely studied, not least because mDA neuron degeneration causes major symptoms in Parkinson’s disease. Diversity of mDA neurons has previously been well characterized anatomically but understanding diversity at a more complete molecular level has not previously been achieved. Here, we used single cell RNA sequencing of isolated mouse neurons expressing the transcription factor Pitx3, a marker for all types of mDA neurons. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

1699 Samples

Download data: TXT

(Submitter supplied) We employed marker-free single-cell RNA-Seq to characterize comprehensive transcriptional profiles of 507 cells from seven stages between embryonic day 11.5 and postnatal day 2.5 during mouse liver development. Our data demonstrated the existence of two types of stem/progenitor cells with distinct molecular patterns during liver development. Both types of cells exhibit heterogeneity of transcriptional program within each cell population, suggesting they be in distinct status of self-renewal, cell proliferation and different sub-stages of differentiation and maturation. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

507 Samples

Download data: FPKM_TRACKING

(Submitter supplied) We applied single cell RNA seq with 10x genomics platform to study co-expression of both Ptf1a and Meis leading to the wholesale transformation of the entire CNS into Coronet cells. Our study identify a cocktail of regulatory determinants for the efficient specification of Coronet cells.

Organism:

Ciona intestinalis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23102

4 Samples

Download data: CLOUPE, H5

(Submitter supplied) The growth plate, which comprises sequentially differentiated cell layers, is a critical structure for bone elongation and regeneration. Although several key regulators in growth plate development have been identified using primarily genetic perturbation, the systematic understanding is still limited. Here we used single cell RNA-seq to interrogate gene expression profiles of 217 single cells from growth plates, and developed the bioinfromatics pipeline Sinova to de-novo reconstruct physiological growth plate development in both temporal and spatial high-resolution. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

217 Samples

Download data: TXT

(Submitter supplied) Mammalian prefrontal cortex contains billions of cells, some of which are known as neurons to play critical roles in memory, cognitive ability, decision making, social behavior etc. through participating into complex neural circuits. Although neural circuits build up in the late stage of human embryo development and even after birth, the diverse and functional cells start to generate and migrate to the appropriate location play essential roles as basis for developing future circuits. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

39 Samples

Download data: TXT, XLS, XLSX