Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

A comprehensive characterisation of fetal and mature retinal cell identity to assess the fidelity of retinal organoids

ABSTRACT: A comprehensive characterisation of fetal and mature retinal cell identity to assess the fidelity of retinal organoids

PROVIDER: PRJNA830973 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR18899808_1.fastq.gz	Fastqsanger.gz
	SRR18899808_2.fastq.gz	Fastqsanger.gz
	SRR18899809_1.fastq.gz	Fastqsanger.gz
	SRR18899809_2.fastq.gz	Fastqsanger.gz
	SRR18899810_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 8

Similar Datasets

A comprehensive characterisation of fetal and mature retinal cell identity to assess the fidelity of retinal organoids

Project description:Retinal organoids derived from pluripotent stem cells have been widely used to model development and disease of the human eye. Yet there is a lack of studies that have systematically evaluated the fidelity of the organoids to their in vivo counterpart. This is particularly relevant for evaluating the efficacy of therapeutic applications and culture protocol performance. To this end, we performed an extensive meta-atlas characterisation of cellular identities of the human eye, covering a wide range of developmental stages. The resulting map uncovered previously unknown biomarkers of major retinal cell types and those associated with cell-type specific maturation. Using these retinal identities from fetal and adult tissue as the map, we systematically assessed the fidelity of the retinal organoids to mimic the human eye, enabling us to comprehensively benchmark the current protocols for retinal organoid generation.

2022-12-10 | GSE201356 | GEO

Comprehensive characterization of fetal and mature retinal cell identity to assess the fidelity of retinal organoids.

Project description:Characterizing cell identity in complex tissues such as the human retina is essential for studying its development and disease. While retinal organoids derived from pluripotent stem cells have been widely used to model development and disease of the human retina, there is a lack of studies that have systematically evaluated the molecular and cellular fidelity of the organoids derived from various culture protocols in recapitulating their in vivo counterpart. To this end, we performed an extensive meta-atlas characterization of cellular identities of the human eye, covering a wide range of developmental stages. The resulting map uncovered previously unknown biomarkers of major retinal cell types and those associated with cell-type-specific maturation. Using our retinal-cell-identity map from the fetal and adult tissues, we systematically assessed the fidelity of the retinal organoids in mimicking the human eye, enabling us to comprehensively benchmark the current protocols for retinal organoid generation.

| S-EPMC9860116 | biostudies-literature

Modifications in Retinal Microvascularization With Targeted Anti-angiogenic Therapy in Colorectal Cancer

Project description:Retinal microvascularization can provide important informations to systemic vascular phenomena. The non-invasive quantitative description of the retinal vascularization is now possible by performing OCT-angiography and their image analysis software (vascular density and retinal perfusion). Systemic microvacular changes during the establishment of oncological treatment by targeted antiangiogenic therapy are little described in the literature. The objective of this pilot study is to describe the evolution of the retinal vascular density of patients with antiangiogenic drugs. In addition, the evolution of the retinal vascular density of patients on antiangiogenic drugs will study as a function of the response to the treatment and the toxicity of these treatments.

| 2382594 | ecrin-mdr-crc

Transcription profiling of human HeLa cells TO assess THE effect OF low RNA SAMPLE amount ON amplification Fidelity

Project description:The effect of low RNA sample amount on amplification fidelity was investigated. Experiment Overall Design: This experiment include 3 samples on 2 platforms for a total of 6 GEO Samples.

2008-04-08 | E-GEOD-10436 | biostudies-arrayexpress

Discard:Characterisation of Colonic Polyps in Vivo

Project description:Prospective study of accuracy of colonic polyp characterisation in vivo using high resolution white light endoscopy, narrow band imaging and chromoendoscopy.

| 2071358 | ecrin-mdr-crc

Human T cell characterisation

Project description:Characterisation of human CD4+ cells to gain more insights into regulatory processes.

2023-03-30 | GSE220530 | GEO

A structural “toggle” in the RNaseH domain of Prp8 helps balance splicing fidelity and catalytic efficiency

Project description:Purpose: To assess the global impacts of RNaseH domain alleles of Prp8 on the in vivo splice site selection for native introns. Conclusions: Our study reveals functional links between distinct spliceosomal conformations and splicing fidelity.

2017-06-21 | GSE96891 | GEO

RNA-seq of STZ-treated mouse retinal microglia cells

Project description:We observe morphological changes of retinal microglia during early stages of diabetic retinopathy in STZ-treated mice. Therefore, in this experiment we assess the impact of STZ-induced diabetic retinopathy on retinal microglia transcriptome during early stages of disease.

2023-10-30 | GSE222005 | GEO

Retinal-cysteine adduct in Opn5L1

Project description:Targeted analysis of retinal-cysteine adduct in Opsin 5 like-1 (Opn5L1) protein Chicken Opn5L1 E177K/Q192K mutant was expressed in HEK293T, regenerated by all-trans-retinal, solubilized by dodecyl maltoside, and purified using Rho1D4 antibody-conjugated Sephalose. Semi-quantitative targeted analyses of trypsinized Opn5L1 with or without light irradiation were carried out using reverse phase LC-ESI-MSn to detect light-dependent formation of retinal-cysteine adduct. The results were analyzed by Mass++, mMass and Igor Pro softwares.

2018-02-15 | PXD008890 | JPOST Repository

Xenograft-specific transcriptional profiling for the characterisation of human pluripotent stem cell-derived neural transplants in the rodent brain

Project description:Here we aim to demonstrate a novel approach enabling standardised and rapid characterisation of transplanted xenografts in the rodent brain. The approach employs bulk tissue dissection, inclusive of the grafted human cells and surrounding host (rodent) tissue, and utilises differences in the RNA sequences between the species to discriminate the xenograft from host gene expression. To demonstrate and validate this technique, we assessed grafts of undifferentiated human stem cells, immature neural progenitors and mature neurons following transplantation into the rodent brain. Mixed species RNAseq was conducted on the bulk dissected tissue, and a high stringency analysis pipeline developed to discriminate the human reads. Xenograft-specific RNAseq allowed accurate profiling the complete transcriptome of the transplant with high sensitivity and accuracy. The profile allowed the identification of novel gene expression and an unbiased characterisation of graft composition, providing a valuable tool for the analysis of xenografts. This characterisation will be especially crucial for the characterisation of grafts in pre-clinical and batch testing of therapeutic cell preparations prior to translation to the clinic.

2019-08-31 | GSE126804 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data