GEO DataSets

(Submitter supplied) We individually examined the ability of human ARGFX, DPRX, LEUTX, and TPRX1 to regulate gene expression by ectopically expressing these proteins in fibroblasts.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

15 Samples

Download data: TXT

(Submitter supplied) ETCHbox genes are mammalian-specific PRD class homeobox genes with conserved expression in the preimplantation embryo but fast-evolving and highly divergent sequences. We ectopically expressed bovine ARGFX and LEUTX ETCHbox genes, both tagged with 3xFLAG tags, in bovine foetal fibroblasts and completed transcriptome seqencing. We compared the transcriptome of cells with ARGFX or LEUTX ectopic expression with control transfected cells. more...

Organism:

Bos taurus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26012

15 Samples

Download data: CSV

(Submitter supplied) We have ectopically expressed two V5-tagged homeobox genes and a control plasmid in mouse embryonic fibroblasts. Following ectopic expression and chemical selection we used whole transcriptome sequencing to reveal any effect of forced missed expression on the MEF transcriptome.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

9 Samples

Download data: TXT

(Submitter supplied) LEUTX is a homeodomain transcription factor expressed in the very early embryo with a function around embryonic genome activation. The LEUTX gene is found only in eutherian mammals, including humans, but unlike the majority of homeobox genes, the encoded amino acid sequence is very different between divergent mammalian species. However, whether dynamic evolution has also occurred between closely related mammalian species remains unclear. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

6 Samples

Download data: XLSX

(Submitter supplied) We have ectopically expressed four V5-tagged mouse homeobox genes in mouse embryonic fibroblasts with endogenous expression restricted to the preimplantation mouse embryo. Following ectopic expression we used whole transcriptome sequencing to reveal any effect of forced missed expression on the MEF transcriptome.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

15 Samples

Download data: XLSX

(Submitter supplied) We examined the ability of human NANOGNB to regulate gene expression by ectopically expressing the gene in human dermal fibroblasts.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

6 Samples

Download data: TXT

(Submitter supplied) We applied TACIT to profile seven histone modifications at single-cell resolution in mouse early embryos from zygotes to blastocysts. Profound epigenetic resetting during early embryo development from fertilization to blastocyst ensures zygotic genome activation and also begets progressive cellular heterogeneities1-6. Mapping single-cell epigenomic profiles of core histone modifications covering each individual cell onto the lineage tree (epigenetic lineages) is a fundamental goal in developmental biology. more...

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL24247 GPL13112

47 Samples

Download data: BW, TXT

(Submitter supplied) we develop a robut low input cell and high throughput single cell ChIP method used for both native and fixed in vitro cultured cells and intact tissue

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24247

3057 Samples

Download data: BED

(Submitter supplied) we develop a robut low input cell and high throughput single cell ChIP method used for both native and fixed in vitro cultured cells and intact tissue

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24247

2161 Samples

Download data: BED

(Submitter supplied) we develop a robut low input cell and high throughput single cell ChIP method used for both native and fixed in vitro cultured cells and intact tissue

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24247

2 Samples

Download data: BW

(Submitter supplied) we develop a robut low input cell and high throughput single cell ChIP method used for both native and fixed in vitro cultured cells and intact tissue

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24247

15 Samples

Download data: BW

(Submitter supplied) we develop a robut low input cell and high throughput single cell ChIP method used for both native and fixed in vitro cultured cells and intact tissue

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24247

4 Samples

Download data: BW

(Submitter supplied) we develop a robut low input cell and high throughput single cell ChIP method used for both native and fixed in vitro cultured cells and intact tissue

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24247

30 Samples

Download data: BW

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

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24247

6509 Samples

Download data: BED, BW

(Submitter supplied) we develop a robut low input cell and high throughput single cell ChIP method used for both native and fixed in vitro cultured cells and intact tissue

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24247

388 Samples

Download data: BED

(Submitter supplied) we develop a robut low input cell and high throughput single cell ChIP method used for both native and fixed in vitro cultured cells and intact tissue

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL24247

852 Samples

Download data: BED

(Submitter supplied) Profound epigenetic resetting during early embryo development from fertilization to blastocyst ensures zygotic genome activation and also begets progressive cellular heterogeneities1-6. Mapping single-cell epigenomic profiles of core histone modifications covering each individual cell onto the lineage tree (epigenetic lineages) is a fundamental goal in developmental biology. Here, we develop a method, TACIT, achieving genome-coverage single-cell profiling of seven histone modifications in mouse early embryos from zygotes to blastocysts. more...

Organism:

Mus musculus

Type:

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

Platform:

GPL24247

27 Samples

Download data: BW, TXT

(Submitter supplied) We examined the degree of regulatory and functional overlap between the three vertebrate Cdx genes using single and triple morpholino knock-down in Xenopus tropicalis followed by RNA-seq.

Organism:

Xenopus tropicalis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15472

18 Samples

Download data: TXT

(Submitter supplied) We developed an adapted version of Smart-seq2, which we call Smart-seq+5', to capture both internal transcript fragments, as well as 5' transcript information, in mammalian preimplantation stages on a single-embryo level. Focussing specifically on transposable elements, we find many conserved patterns and features shared between mouse, pig, cow, rabbit and rhesus.

Organism:

Sus scrofa; Macaca mulatta; Bos taurus; Mus musculus; Oryctolagus cuniculus

Type:

Expression profiling by high throughput sequencing

6 related Platforms

361 Samples

Download data: BW, TXT

(Submitter supplied) Since the establishment of the first embryonic stem cells (ESCs), in vitro culture of totipotent cells functionally and molecularly comparable to in vivo blastomeres with embryonic and extraembryonic developmental potency is unviable. Spliceosomes are responsible for mRNA splicing and maturation. Here, we report that spliceosomal repression in mouse ESCs drives pluripotent-to-totipotent state transition. more...

Organism:

Mus musculus

Type:

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

Platforms:

GPL24247 GPL21273 GPL17021

50 Samples

Download data: COV, CSV, NARROWPEAK