GEO DataSets

(Submitter supplied) This experiment is aimed to compare the transcriptomes of rbm24a mutant and wildtype at 33 hpf. As Rbm24a is an RNA binding protein, this comparation is suitable to obtain information on differential gene expression and alternative splicing. We found that the expression of most of the crystallin genes and many other lens specific genes are down regulated in rbm24a mutant, without changes in splicing patterns.

Organism:

Danio rerio

Type:

Expression profiling by high throughput sequencing

Platform:

GPL14875

2 Samples

Download data: XLS

(Submitter supplied) This experiment is aimed to compare the transcriptomes of rbm24a mutant and wildtype at 33 hpf. As Rbm24a is an RNA binding protein, this comparation is suitable to obtain information on differential gene expression and alternative splicing. We found that the expression of most of the crystallin genes and many other lens specific genes are down regulated in rbm24a mutant, without changes in splicing patterns.

Organism:

Danio rerio

Type:

Expression profiling by high throughput sequencing

Platform:

GPL14875

6 Samples

Download data: XLS, XLSX

(Submitter supplied) The transcription factor Pax6 is comprised of the paired domain (PD) and homeodomain (HD). In the developing forebrain, Pax6 is expressed in ventricular zone precursor cells and in specific subpopulations of neurons; absence of Pax6 results in disrupted cell proliferation and cell fate specification. Pax6 also regulates the entire lens developmental program. To reconstruct Pax6-dependent gene regulatory networks (GRNs), ChIP-seq studies were performed using lens and forebrain chromatin from mice. more...

Organism:

Mus musculus

Type:

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

Platforms:

GPL11002 GPL17021

24 Samples

Download data: BED, NARROWPEAK, TXT

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

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6887

18 Samples

Download data

(Submitter supplied) Analysis of Tdrd7 deficiency in mouse lens epithelial-derived cell line at gene expression level. The hypothesis tested was that Tdrd7 is involved in post-transcriptional control of gene expression in the lens. Results provide evidence for differential regulation of genes involved in lens homeostasis and cataract formation in the absence of Tdrd7. In eukaryotic cells, cytoplasmic RNA granules (RGs) function in the post-transcriptional control of gene expression. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6887

6 Samples

Download data: TXT

(Submitter supplied) Analysis of Tdrd7 deficiency in mouse lens epithelial-derived cell line at gene expression level. The hypothesis tested was that Tdrd7 is involved in post-transcriptional control of gene expression in the lens. Results provide evidence for differential regulation of genes involved in lens homeostasis and cataract formation in the absence of Tdrd7. In eukaryotic cells, cytoplasmic RNA granules (RGs) function in the post-transcriptional control of gene expression. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6887

6 Samples

Download data: TXT

(Submitter supplied) Analysis of Tdrd7 deficiency in mouse lens epithelial-derived cell line at gene expression level. The hypothesis tested was that Tdrd7 is involved in post-transcriptional control of gene expression in the lens. Results provide evidence for differential regulation of genes involved in lens homeostasis and cataract formation in the absence of Tdrd7. In eukaryotic cells, cytoplasmic RNA granules (RGs) function in the post-transcriptional control of gene expression. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6887

6 Samples

Download data: TXT

(Submitter supplied) We followed the polysomal association of maternal and early zygotic transcriptome over the first few hours of embryonic development, prior to and after MBT. We isolated polysome-associated (bound) and non-polysome-associated (unbound) mRNAs using sucrose gradient centrifugation followed by size fractionation. Using next generation sequencing (RNA-seq), we profiled the transcriptome in polysome-bound and unbound fractions. more...

Organism:

Danio rerio

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18413

18 Samples

Download data: TXT

(Submitter supplied) Celf1 germline or conditional deletion mouse mutants exhibit fully penetrant lens defects including cataract. To gain insight into gene expression changes underlying these lens defects, microarray comparison was performed for lenses obtained from wild-type and Celf1 conditional deletion mutant mice. At ±2.0 fold-change cut-off (p<0.05), 102 genes were identified to be differentially expressed in Celf1 conditional mutant lenses

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6887

5 Samples

Download data: TXT

(Submitter supplied) DEAD box RNA helicase DDX39A has been shown to regulate RNA metabolism; however its role in vertebrate development has not previously been examined. To determine the impact of loss of ddx39a on transcriptome during vertebrate early development, we pursued transcriptome analysis (RNA-Seq) on wild type and ddx39a mutant zebrafish embryos at 24 hour-post-fertilization. And by using RIP-seq to identify targeted RNA which were DDX39A binded.

Organism:

Danio rerio

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL21741

4 Samples

Download data: TXT

(Submitter supplied) RNG140 is an RNA-binding protein that increases in expression during eye lens differentiation and is involved in lens formation. However, the relevance of RNG140-mediated translational regulation to differentiation is not well understood. RNG140-mediated translational regulation operates in the mouse eye, where RNG140 knockout increased the translation of long mRNAs. mRNAs involved in lens differentiation, such as crystallin mRNAs, are short, and can escape translational inhibition by RNG140 and be translated in differentiating lenses.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL21103

12 Samples

Download data: TXT

(Submitter supplied) RNG140 is an RNA binding protein involved in the regulation of various cell differentiation and functional processes. Although RNG140 has been shown to inhibit translation in rabbit reticulocyte lysates, it is not known what kind of mRNAs were regulated their translation by RNG140. Comprehensive ribosome profiling revealed that overexpression of RNG140 in cultured CHO cells reduces translation of long mRNAs, including those associated with cell proliferation.

Organism:

Cricetulus griseus

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL26969

8 Samples

Download data: TXT

(Submitter supplied) Translation of TOP mRNAs encoding protein synthesis machinery is strictly regulated by an amino acid sensing mTOR pathway. However, its regulatory mechanism remains elusive. Here, we demonstrate that TOP mRNA translation positively correlates with its poly(A) tail length under mTOR active/amino acid-rich condition, suggesting that TOP mRNAs are post-transcriptionally controlled by poly(A) tail length regulation. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24106

4 Samples

Download data: TXT

(Submitter supplied) Translation of TOP mRNAs encoding protein synthesis machinery is strictly regulated by an amino acid sensing mTOR pathway. However, its regulatory mechanism remains elusive. Here, we demonstrate that TOP mRNA translation positively correlates with its poly(A) tail length under mTOR active/amino acid-rich condition, suggesting that TOP mRNAs are post-transcriptionally controlled by poly(A) tail length regulation. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24106

4 Samples

Download data: TXT

(Submitter supplied) In a screen for downregulated genes in poly(U) chromatography upon GLD4 knockdown, we identified carbohydrate metabolism genes were affected including a glucose transporter, GLUT1

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

6 Samples

Download data: IDAT, TXT

(Submitter supplied) Cytoplasmic polyadenylation is a mechanism to promote mRNA translation in a wide variety of biological contexts. A canonical complex centered around the conserved RNA-binding protein family CPEB has been shown to be responsible for this process. We have previously reported evidence for an alternative non-canonical, CPEB-independent complex in Drosophila, of which the RNA-interference factor Dicer-2 is a component. more...

Organism:

Drosophila melanogaster

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17275

17 Samples

Download data: TXT

(Submitter supplied) The lens of the eye is consisted of lens fiber cells that undergo large-scale organelle degradation during terminal differentiation. To understand the molecular mechanism of large-scale organelle degradation, we compared the gene expression profiles between the lens and body without eyes of larval zebrafish using a microarray analysis.

Organism:

Danio rerio

Type:

Expression profiling by array

Platform:

GPL14664

2 Samples

Download data: TXT

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

Organism:

Mus musculus; Homo sapiens

Type:

Expression profiling by array

Platforms:

GPL15207 GPL11180

71 Samples

Download data: CEL

(Submitter supplied) To test the mRNA polyadenylation status in brain of CPEB4 modified mice we performed poly(U)-chromatography on RNA purified from a pool of cortex and striatum tissues of control and TgCPEB4∆4 mice

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL11180

18 Samples

Download data: CEL

(Submitter supplied) To test the mRNA polyadenylation status in brain of CPEB4 modified mice, we performed poly(U)-chromatography on RNA purified from a pool of cortex and striatum tissues of WT and CPEB4 KOGT/+ and CPEB4 KO

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL11180

18 Samples

Download data: CEL