GEO DataSets

(Submitter supplied) Histone modifications play a key role in regulating gene expression and cell fate during development and disease. Current methods for cell-type specific genome-wide profiling of histone modifications require dissociation and isolation of cells and are not compatible with all tissue types. Here we adapt Targeted DamID to recognise specific histone marks, by fusing chromatin binding proteins or single-chain antibodies to Dam, an E. more...

Organism:

Mus musculus; Xenopus laevis; Drosophila melanogaster

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL21046 GPL18480 GPL19951

47 Samples

Download data: BW

(Submitter supplied) During gastrulation and neurulation, the chordamesoderm and overlying neuroectoderm of vertebrate embryos converge under the control of a specific genetic programme to the dorsal midline, simultaneously extending along it. However, whether mechanical tensions resulting from these morphogenetic movements play a role in long-range feedback signalling that in turn regulates gene expression in the chordamesoderm and neuroectoderm is unclear. more...

Organism:

Xenopus laevis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21046

6 Samples

Download data: XLSX

(Submitter supplied) Epigenetic homogeneity underlies sperm programming for embryonic transcription single-ended ChIP-Seq libraries from sperm, egg extract (-geminin) treated sperm, egg extract (+geminin) treated sperm, and St 7 embryos with antibody for H3Kme3, H3K27me3, 3 replicates for each histone modification pull-down

Organism:

Homo sapiens; Xenopus laevis

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL21046 GPL18460

36 Samples

Download data: BED, BROADPEAK, NARROWPEAK

(Submitter supplied) Xenopus eggs can induce the reversal of differentiation processes of somatic cells. Yet, the egg is not fully efficient in reprogramming a differentiated nucleus, as certain genes retain a memory of gene expression of their somatic cell of origin. This is thought to be a reason for the low success rate of current cloning and reprogramming strategies. While previous studies addressed extensively the mechanisms that maintain an inactive state of genes (OFF-memory), we investigated the importance of memory of an active transcriptional state (ON-memory) in maintaining cell fate identity and on resistance to reprogramming. more...

Organism:

Xenopus laevis

Type:

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

Platform:

GPL21046

77 Samples

Download data: BED, XLS

(Submitter supplied) Here we describe a base-resolution DNA methylation map of Xenopus laevis gastrula (st.10.5) embryos generated by whole genome bisulfite sequencing

Organism:

Xenopus laevis

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL21046

1 Sample

Download data: TXT

(Submitter supplied) Here, we report that we detected N-6-methyl-deoxyadenosine (dA6m) not only in frog DNA, but also in other species including mouse and humans. Our methylome analysis revealed that dA6m is widely distributed across the eukaryotic genome, and it is present in different cell types. dA6m is commonly depleted in gene exons, whilst it remains abundant in introns. Finally, we have identified the putative consensus sequence, where there is preferential methylation. more...

Organism:

Escherichia coli; Xenopus laevis; Mus musculus

Type:

Methylation profiling by high throughput sequencing

4 related Platforms

28 Samples

Download data: BW