GEO DataSets

(Submitter supplied) The cement gland in Xenopus laevis has long been used as a model to study the interplay of cell signaling and transcription factors during embryogenesis. The homeodomain-containing transcription factor Pitx1 has been linked to cement gland development. However, the downstream transcriptional targets of Pitx1 remain unknown. Here, we utilize RNA Sequencing to identify transcripts whose expression are affected by Pitx1 misexpression in animal cap explants.

Organism:

Xenopus laevis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18936

4 Samples

Download data: XLSX

(Submitter supplied) During embryonic development, the neural crest is a transient, migratory cell population that differentiates into a large variety of tissues and contributes much to the formation of vertebrate body. In Xenopus, lrig3 is involved in neural crest formation by modulating FGF and Wnt signaling. Lrig3 functions downstream of pax3 and zic1 to regulate the expression of neural crest markers. We used microarrays to identify the lrig3 target genes during neural crest formation.

Organism:

Xenopus laevis

Type:

Expression profiling by array

Platform:

GPL10756

8 Samples

Download data: CEL, CHP

(Submitter supplied) Exostosin 1 (Ext1) is a glycosyltransferase involved in the biosynthesis of the extracellular matrix Heparan Sulfate Proteoglycan (HSPG). Knockdown of Ext1 caused gastrulation defects and formation of an abnormal body axis. Since ext1 has been implicated as an indirect contributor to multiple signaling pathways in vertebrate development, microarray was used to identify genes expressed in gastrulae that would be affected by a reduction in ext1 expression. more...

Organism:

Xenopus laevis

Type:

Expression profiling by array

Platform:

GPL10756

6 Samples

Download data: CEL

(Submitter supplied) RNA-seq was employed to analyze differential gene expression upon ERFE knockdown in Xenopus laevis embryos at three different developmental stages using two non-overlapping translation blocking morpholino oligonucleotides. Only a small number of genes was affected by both morpholinos and at more than one of the developmentel stages analyzed, among them gja4, the gene coding for Gap junction junction protein Alpha 4.

Organism:

Xenopus laevis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22393

45 Samples

Download data: TXT

(Submitter supplied) Surgical removal of the lens from larval Xenopus laevis results in a rapid transdifferention of central corneal cells to form a new lens. The trigger for this process is understood to be an induction event arising from the unprecedented contact between the cornea and the vitreous humour that occurs following lens removal. The identity of this trigger is unknown. Here, we have used a functional transgenic approach to show that BMP signalling is required for lens regeneration and a microarray approach to identify genes that are upregulated specifically during this process. more...

Organism:

Xenopus laevis

Type:

Expression profiling by array

Platform:

GPL1318

9 Samples

Download data: CEL

(Submitter supplied) Foregut organogenesis is regulated by inductive interactions between the endoderm and the adjacent mesoderm. We identified genes induced in the foregut progenitors by the adjacent mesoderm. We used microarrays to detail the global programme of early foregut endoderm gene expression resulting from mesoderm induction and identified distinct classes of up-regulated genes during this process.

Organism:

Xenopus laevis

Type:

Expression profiling by array

Platform:

GPL1318

8 Samples

Download data: CEL, TXT

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

Organism:

Xenopus laevis

Type:

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

Platform:

GPL21248

12 Samples

Download data

(Submitter supplied) VEGFA signaling is crucial for physiological and pathological angiogenesis and hematopoiesis. Although many context-dependent signaling pathways downstream of VegfA have been uncovered, vegfa transcriptional regulation in vivo is unclear. Here, we show that ETS transcription factor Etv6 positively regulates vegfa expression during blood stem cell development through multiple transcriptional inputs. more...

Organism:

Xenopus laevis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL21248

6 Samples

Download data: BED

(Submitter supplied) VEGFA signaling is crucial for physiological and pathological angiogenesis and hematopoiesis. Although many context-dependent signaling pathways downstream of VegfA have been uncovered, vegfa transcriptional regulation in vivo is unclear. Here, we show that ETS transcription factor Etv6 positively regulates vegfa expression during blood stem cell development through multiple transcriptional inputs. more...

Organism:

Xenopus laevis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21248

6 Samples

Download data

(Submitter supplied) Bone Morphogenetic Proteins (BMPs), a subgroup of the TGF-beta superfamily, were originally isolated from bone on the basis of their ability to induce ectopic bone development. While BMPs are involved in a wide range of developmental and physiological functions, very few vertebrate target genes in this pathway have been identified. To identify target genes regulated by the BMP growth factor family in Xenopus, large-scale microarray analyses were conducted to discover genes directly activated by this factor in dissociated animal cap tissues treated with a combination of the protein synthesis inhibitor cycloheximide and BMP2. more...

Organism:

Xenopus laevis

Type:

Expression profiling by array

Platforms:

GPL1860 GPL1861

2 Samples

Download data

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

Organism:

Mus musculus

Type:

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

Platform:

GPL21103

22 Samples

Download data: BW, TXT

(Submitter supplied) Developmental genes often reply on multiple transcriptional enhancers to achieve correct expression during embryogenesis. These enhancers can have partially redundant activities, thus it is difficult to ascertain the direct impact of the loss of a single one of them as often only mild, if any, phenotypes are seen. In this work we use the testbed locus Pitx1 to characterise the regulatory and cell specific alterations following the loss of one of its enhancers Pen in vivo. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

4 Samples

Download data

(Submitter supplied) Developmental genes often reply on multiple transcriptional enhancers to achieve correct expression during embryogenesis. These enhancers can have partially redundant activities, thus it is difficult to ascertain the direct impact of the loss of a single one of them as often only mild, if any, phenotypes are seen. In this work we use the testbed locus Pitx1 to characterise the regulatory and cell specific alterations following the loss of one of its enhancers Pen in vivo. more...

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL21103

6 Samples

Download data: BW

(Submitter supplied) Developmental genes often reply on multiple transcriptional enhancers to achieve correct expression during embryogenesis. These enhancers can have partially redundant activities, thus it is difficult to ascertain the direct impact of the loss of a single one of them as often only mild, if any, phenotypes are seen. In this work we use the testbed locus Pitx1 to characterise the regulatory and cell specific alterations following the loss of one of its enhancers Pen in vivo. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

8 Samples

Download data: BW

(Submitter supplied) Developmental genes often reply on multiple transcriptional enhancers to achieve correct expression during embryogenesis. These enhancers can have partially redundant activities, thus it is difficult to ascertain the direct impact of the loss of a single one of them as often only mild, if any, phenotypes are seen. In this work we use the testbed locus Pitx1 to characterise the regulatory and cell specific alterations following the loss of one of its enhancers Pen in vivo. more...

Organism:

Mus musculus

Type:

Other

Platform:

GPL21103

4 Samples

Download data: TXT