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CircRNAs at 5 time points during retinal development of mouse

ABSTRACT: circRNAs at 5 time points during retinal development of mouse

PROVIDER: PRJNA564599 | ENA |

REPOSITORIES: ENA

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circRNAs at 5 time points during retinal development of mouse

Project description:ciRNAs during retinal development

2020-09-01 | GSE137128 | GEO

Profiles analysis reveals circRNAs involving zebrafish physiological development

Project description:Recent studies have found that known functions of circRNAs include sequestration of microRNAs or proteins, modulation of transcription and interference with splicing, and even translation to produce poly-peptides. The zebrafish model is also demonstrably similar to humans in many studies. In order to explore the changes in circRNAs during embryonic development, further to research the mechanism of action of circRNAs in development-related diseases. Zebrafish embryos at blastula period, gastrula period, segmentation period, throat stage and incubation period were collected. Illumina deep sequencing technology and CIRI algorithm were used to detecting circRNAs. Totally we identified 1028 circRNAs (junction reads ≥ 5 and p < 0.05). Considering that circRNAs function is related to host genes, then bioinformatics analysis revealed these differentially expressed host genes are involved in NOTCH signaling pathways, cardiovascular system development, retinal ganglion cell axon guidance and so on. Moreover, circRNAs can participate in biological regulation through miRNA sponges function. TargetScan and miRanda were used to predict 73 miRNAs binding to circRNAs such as miR-19b, miR-124 and so on, some miRNAs play important roles in embryogenesis. The peak expression of circRNAs is distributed at different time points, suggesting that it may be involved in embryogenesis at different stages. Our study provides a foundation for understanding the dynamic regulation of circRNA transcriptomes during embryogenesis and identifies novel key circRNAs that might control embryonic development in zebrafish model.

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Murine model of oxygen-induced retinopathy - 3 time points [retina]

Project description:To study early and late transcriptional changes introduced to blood and retinal tissue in murine oxygen-induced retinopathy (OIR). From retinal cells RNA was extracted at three time points: immediately after end of hyperoxia (P12), at P17 and P28.

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Murine model of oxygen-induced retinopathy - 3 time points [blood]

Project description:To study early and late transcriptional changes introduced to blood and retinal tissue in murine oxygen-induced retinopathy (OIR). From blood MNCs total RNA was extracted at three time points: immediately after end of hyperoxia (P12), at P17 and P28.

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Control vs CRB2 cKO retinas at early postnatal time points

Project description:We used microarray gene profiling to study the transcriptome of retinas lacking CRB2 during late retinal development. Unexpectedly, the retinas of newborn mice lacking CRB2 showed no changes in the transcriptome during retinal development. Comparison between Control and CRB2 null retinas at different time points (P0, P3, P6 and P10)

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Gene expression profile of circRNA in spleen tissue of Meishan pigs at different time points

Project description:Numerous circular RNAs (circRNAs) have been recently identified in porcine tissues and cell types. Nevertheless, their significance in porcine spleen development is yet unelucidated. Herein, we report an extensive overlook of circRNA expression profile during Meishan pig spleen development at 1, 7, 14, 21, 28, 35, 120, and 180 days of age. Overall, 39,641 circRNAs were identified from 6,914 host genes. Among them, many circRNAs are up- or down-regulated at different time points of pig spleen development. Using WGCNA analysis, we revealed two essential modules for protein-coding genes and circRNAs. Subsequent correlation analysis revealed 67 circRNAs/co-expressed genes that participated in immnue-associated networks. Furthermore, a competing endogenous RNA (ceRNA) network analysis of circRNAs revealed that 12 circRNAs modulated CD226, MBD2, SAMD3, SIT1, SRP14, SYTL3 gene expressions via acting as miRNA sponges. Moreover, the circRNA_21767/miR-202-3p axis regulated SIT1 expression in a ceRNA manner, which is critical for the immune-based regulation of spleen development in Meishan pigs.

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scRNA seq of the hESC line H9 differentiated to retinal pigment epithelium at two different time points

Project description:scRNA seq of the hESC line H9 differentiated to retinal pigment epithelium at two different time points

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Genome wide analysis of rat renal gene expression at two different time points during hyperoxaluria development

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MicroRNA dynamics during retinal development

Project description:MicroRNA dynamics during retinal development

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RNA-Seq analysis of the retinal pigment epithelial cell line, ARPE19, during a time course of serum deprivation.

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