Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single cell sequencing of mouse retina

ABSTRACT: Purpose: The goals of this study are to study the expression of Sfxn3 in C57B/L6 mouse retina and retinal cell types Methods: Library prepared followed by 10X Genomics standard protocol. Transcriptome were generated by high throughput sequencing

ORGANISM(S): Mus musculus

PROVIDER: GSE147573 | GEO | 2020/04/22

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Single cell sequencing of mouse muscles

Project description:Purpose: The goals of this study are to compare the Quadriceps and diaphragm muscles Methods: Library prepared followed by 10X Genomics standard protocol. Transcriptome were generated by high throughput sequencing

2019-10-31 | GSE138707 | GEO

Single cell RNAseq analysis of wildtype and Igfbpl1-/- retina microglia

Project description:IGFBPL1 deficiency leads to progressive retinal neuron loss and phosphorylated Tau accumulation in the brain. To investigate the role of IGFBL1 in retina microglia homestasis and function. Total immune cells were sorted from wildtype and Igfbpl1-/- mice applied for single cell RNAseq analysis by 10X genomics technology.

2021-06-05 | GSE176204 | GEO

Single cell sequencing of de-differentiated dermal adipocytes

Project description:Purpose: The goals of this study are to compare the de-differentiated dermal adipocytes with normal skin fibroblasts. Methods: Library prepared followed by 10X Genomics standard protocol. Transcriptome was generated by high throughput sequencing.

2019-09-16 | GSE129371 | GEO

Single cell sequencing of de-differentiated adipocytes induced by breast tumor

Project description:Purpose: The goals of this study are to determine adipocyte de-differentiation and the fate of these de-differentiated cells in breast tumor. Methods: Library prepared followed by 10X Genomics standard protocol. Transcriptome was generated by high throughput sequencing.

2022-09-02 | GSE148646 | GEO

Single cell RNAseq of 12-week old AKIMBA versus WT mouse retina

Project description:Single-cell RNA sequencing was performed on retinal tissue from 12-week-old wild-type and Akimba (Ins2AkitaxVEGF+/-) mice, which are known to replicate features of clinical diabetic retinopathy. The aim of this study was to provide deeper insight into the complex network of molecular and cellular changes that underlie diabetic retinopathy by measuring the transcriptional changes that occur in the different cellular compartments of the degenerating diabetic mouse retina. Retinas (n=4 for Akimba, n=2 for wild-type) were isolated in ice-cold Dulbecco’s Modified Eagle Medium. After rinsing with Dulbecco’s Phosphate-Buffered Saline containing 2% fetal bovine serum, each retina was incubated with 1mL digestion buffer (2mg/mL collagenase-P, 200U/mL DNAse-I (Sigma-Aldrich) in M199 medium (Life Technologies) at 37°C for 10min. Retinal tissue was further dissociated by trituration and the suspension was filtered through a 40µm cell strainer and centrifuged for 5min at 300xg (4°C). Pooled retinal single-cell suspensions from wild-type and Akimba were counted on a Luna-FL Cell Counter (Logos Biosystems) and libraries were prepared with the Chromium Single-cell 3’ V2 Chemistry Library Kit, Gel Bead & Multiplex Kit and Chip Kit (10X Genomics) aiming for 5000 cells per library. Barcoded libraries were sequenced on an Illumina HiSeq4000 in 25-8-98 paired-end configuration. The transcriptome data for 9474 retinal cells were analysed, yielding 15 clusters corresponding to eight distinct retinal cell types.

2020-05-23 | E-MTAB-9061 | biostudies-arrayexpress

Single-cell RNA-Seq Investigation of Foveal and Peripheral Expression in the Human Retina

Project description:Purpose: Single-cell RNA sequencing has revolutionized cell-type specific gene expression analysis. The goals of this study are to compare cell specific gene expression patterns between retinal cell types originating from the fovea and the periphery of human eyes. Methods: Independent libraries were prepared for foveal and peripheral samples of neural retina from three donors using the 10x Chromium system. Libraries were sequenced on a HiSeq4000. Sequenced reads were mapped to the human genome build hg19 will CellRanger(v3.0.1) and filters removed cells likely to be doublets or cells with a high proportion of mitochondrial reads. Clustering of cells with similar expression profiles was performed with Seurat (v2.3.4). Results: Independent libraries were prepared for foveal and peripheral samples of neural retina from three donors using the 10x Chromium system. Libraries were sequenced on a HiSeq4000. Sequenced reads were mapped to the human genome build hg19 will CellRanger(v3.0.1) and filters removed cells likely to be doublets or cells with a high proportion of mitochondrial reads. Clustering of cells with similar expression profiles was performed with Seurat (v2.3.4). Conclusions: Our study generates a large atlas of human retinal transcriptomes at the single cell level. We identified the majority of expected neural and supportive cell types, and describe regional differences in gene expression between the fovea and the periphery. Our results show that that single-cell RNA sequencing can be performed on human retina after cryopreservation, and that cone photoreceptors and Muller cells demonstrate region-specific patterns of gene expression.

2019-05-17 | GSE130636 | GEO

Single-cell RNA-Seq Analysis of Retinal Development Identifies NFI Factors as Regulating Mitotic Exit and Late-Born Cell Specification

Project description:Single cell RNA sequencing using either an adapted Smart-seq2 protocol on Chx10-GFP (+) retinal progenitor cells; 10x Genomics Chromium Single Cell system across 10 timepoints of mouse retinal development to examine retinal progenitor cell heterogeneity across retinal development and global changes in gene expression from early retinal neuroepithelial cells through specification and differentiation of retinal cell types; 10X Genomics Chromium Single Cell on P14 Nfia/b/x het control or Nfia/b/x tCKO (Chx10-Cre-GFP) retinas

2019-05-22 | GSE118614 | GEO

Stress resilience-enhancing drugs preserve tissue structure and function in degenerating retina via selective phosphodiesterase inhibition

Project description:To determine the gene expression changes in the retina of Abca4-/-Rdh8-/- (dKO) mice, we collected retina samples from dKO animals under various experimental conditions, generated single-cell suspensions, and performed scRNA-Seq (10X Genomics).

2023-05-01 | GSE208760 | GEO

Gene expression data of proliferative cells isolated from the adult human peripheral retina, cultured and differentiated

Project description:Proliferative cells isolated from the adult human peripheral retina only transiently upregulate key retinal markers upon induced differentiation. We used microarray to identify gene expression before and after differentiation to evaluate the in vitro retinal differentiation potential of the cells isolated from the adult human peripheral retina using the current cell culture and differentiation protocol.

2017-11-29 | GSE103399 | GEO