GEO DataSets

Dynamics of global gene expression changes during preimplantation development. Unfertilized eggs, fertilized egg, 2-cell embryos, 4-cell embryos, 8-cell embryos, morulae and blastocysts examined.

Organism:

Mus musculus

Type:

Expression profiling by array, log ratio, 7 development stage sets

Platform:

GPL870

Series:

GSE936

28 Samples

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(Submitter supplied) Understanding preimplantation development is important both for basic reproductive biology and for practical applications including regenerative medicine and livestock breeding. Global expression profiles revealed and characterized the distinctive patterns of maternal RNA degradation and zygotic gene activation, including two major transient waves of de novo transcription. The first wave corresponds to zygotic genome activation (ZGA); the second wave, named mid-preimplantation gene activation (MGA), precedes the dynamic morphological and functional changes from the morula to blastocyst stage. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Datasets:

GDS578 GDS579

Platform:

GPL870

64 Samples

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Characterization of zygotic gene activation (ZGA) and influence of maternal transcripts. Embryos cultured until 2-cell stage with inhibitors of transcription (α-amanitine), DNA replication (aphidicolin) and protein synthesis (cycloheximide).

Organism:

Mus musculus

Type:

Expression profiling by array, log ratio, 5 agent, 4 development stage sets

Platform:

GPL870

Series:

GSE936

36 Samples

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(Submitter supplied) Translational regulation plays an important role in gene expression and function. Although the transcriptional dynamics of mouse pre-implantation embryos has been well characterized, the global mRNA translation landscape and the master regulators of zygotic genome activation (ZGA) remain unknown. Here, by developing and applying a low-input ribosome profiling (LiRibo-seq) technique, we profiled the mRNA translation landscape in mouse pre-implantation embryos and revealed the translational dynamics during mouse pre-implantation development. more...

Organism:

Mus musculus

Type:

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

Platforms:

GPL19057 GPL13112

50 Samples

Download data: BIGWIG, TXT

(Submitter supplied) The earliest stage of animal development is controlled by maternally deposited mRNA transcripts and proteins. Once the zygote is able to transcribe its own genome, maternal transcripts are degraded, in a tightly regulated process known as the maternal to zygotic transition (MZT). While this process has been well-studied within model species, we have little knowledge of how the pools of maternal and zygotic transcripts evolve. more...

Organism:

Drosophila persimilis; Drosophila santomea; Drosophila ananassae; Drosophila erecta; Drosophila miranda; Drosophila sechellia; Drosophila simulans; Drosophila virilis; Drosophila mauritiana; Drosophila mojavensis; Drosophila pseudoobscura; Drosophila willistoni; Drosophila melanogaster; Drosophila yakuba

Type:

Expression profiling by high throughput sequencing; Third-party reanalysis

14 related Platforms

119 Samples

Download data: TXT

(Submitter supplied) H3.3-mediated paternal chromatin remodeling is essential for the development of preimplantation embryos and the activation of the paternal genome during embryogenesis.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

3 Samples

Download data: FPKM_TRACKING

(Submitter supplied) Histone acetylation H3K27ac is a well-established chromatin marker for active enhancers and promoters. However, reprogramming dynamics of H3K27ac during maternal-to-zygotic transition (MZT) in mammalian embryos has not been well studied. By profiling the allelic landscape of H3K27ac during mouse MZT, here we show that H3K27ac undergoes three waves of rapid global transitions from oocyte to 2-cell stages. more...

Organism:

Mus musculus

Type:

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

Platform:

GPL21626

32 Samples

Download data: BED, BIGWIG, TXT

(Submitter supplied) In all animals, the initial events of embryogenesis are controlled by maternal gene products that are deposited into the developing oocyte. At some point after fertilization, control of embryogenesis is transferred to the zygotic genome in a process called the maternal to zygotic transition (MZT). During this time maternal RNAs are degraded and zygotic RNAs are transcribed1. A long standing question has been, what factors regulate these events? The recent findings that microRNAs and Smaugs mediate maternal transcript degradation brought new life to this old problem2,3, however, the transcription factors that activate zygotic gene expression remained elusive. more...

Organism:

Drosophila melanogaster

Type:

Expression profiling by array

Dataset:

GDS3477

Platform:

GPL1322

6 Samples

Download data: CEL

Analysis of embryos lacking the zinc finger protein Zelda. Results provide insight into the role of Zelda in the transfer of control of embryogenesis to the zygotic genome during the process of maternal-to-zygotic transition.

Organism:

Drosophila melanogaster

Type:

Expression profiling by array, count, 2 genotype/variation sets

Platform:

GPL1322

Series:

GSE11231

6 Samples

Download data: CEL

(Submitter supplied) Embryos were collected at 2 cell stage. cRNA from four biological replicates of each were generated and the expression profiles were determined using Affymetrix MOE430 v2. Keywords: repeat

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS2156

Platform:

GPL1261

8 Samples

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Analysis of two-cell stage embryos maternally depleted for BRG1, a catalytic subunit of SWI/SNF-related chromatin remodeling complexes. After fertilization, the embryo shifts from maternal to zygotic genome expression. Results provide insight into the role of Brg1 in this transition.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 2 genotype/variation sets

Platform:

GPL1261

Series:

GSE5371

8 Samples

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(Submitter supplied) Epigenetic modifications, including DNA methylation and histone modifications, are reprogrammed considerably following fertilization during mammalian early embryonic development. Incomplete epigenetic reprogramming is a major factor leading to poor developmental outcome in embryos generated by assisted reproductive technologies, such as somatic cell nuclear transfer. However, the role of histone modifications in preimplantation development is poorly understood. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21273

9 Samples

Download data: TXT

(Submitter supplied) Transcriptomic profile in in vitro produced mouse late two-cell stage embryos treated with MYC inhibitor 10074-G5

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21273

4 Samples

Download data: TXT

(Submitter supplied) In mammals, extensive chromatin reorganization is essential for reprogramming terminally committed gametes to a totipotent state during preimplantation development. However, the global chromatin landscape and its dynamics in this period remain unexplored. Here we report a genome-wide map of accessible chromatin in mouse preimplantation embryos using an improved assay for transposase-accessible chromatin with high throughput sequencing (ATAC-seq) approach with CRISPR/Cas9-assisted mitochondrial DNA depletion. more...

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL18480

2 Samples

Download data: BEDGRAPH

(Submitter supplied) In mammals, extensive chromatin reorganization is essential for reprogramming terminally committed gametes to a totipotent state during preimplantation development. However, the global chromatin landscape and its dynamics in this period remain unexplored. Here we report a genome-wide map of accessible chromatin in mouse preimplantation embryos using an improved assay for transposase-accessible chromatin with high throughput sequencing (ATAC-seq) approach with CRISPR/Cas9-assisted mitochondrial DNA depletion. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18480

32 Samples

Download data: TXT

(Submitter supplied) In mammals, extensive chromatin reorganization is essential for reprogramming terminally committed gametes to a totipotent state during preimplantation development. However, the global chromatin landscape and its dynamics in this period remain unexplored. Here we report a genome-wide map of accessible chromatin in mouse preimplantation embryos using an improved assay for transposase-accessible chromatin with high throughput sequencing (ATAC-seq) approach with CRISPR/Cas9-assisted mitochondrial DNA depletion. more...

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL18480

17 Samples

Download data: BEDGRAPH

(Submitter supplied) In mammals, extensive chromatin reorganization is essential for reprogramming terminally committed gametes to a totipotent state during preimplantation development. However, the global chromatin landscape and its dynamics in this period remain unexplored. Here we report a genome-wide map of accessible chromatin in mouse preimplantation embryos using an improved assay for transposase-accessible chromatin with high throughput sequencing (ATAC-seq) approach with CRISPR/Cas9-assisted mitochondrial DNA depletion. more...

Organism:

Mus musculus

Type:

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

Platform:

GPL18480

51 Samples

Download data: BEDGRAPH

(Submitter supplied) Zygotic genome activation (ZGA) is the first transcription event in life. However, it is unclear how RNA polymerase is engaged in initiating ZGA in mammals. Here, by developing small-scale Tn5-assisted chromatin cleavage with sequencing (Stacc–seq), we investigated the landscapes of RNA polymerase II (Pol II) binding in mouse embryos. We found that Pol II undergoes ‘loading’, ‘pre-configuration’, and ‘production’ during the transition from minor ZGA to major ZGA. more...

Organism:

Mus musculus

Type:

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

Platforms:

GPL17021 GPL21273

116 Samples

Download data: BEDGRAPH, TXT

(Submitter supplied) Transcriptional activation in mammalian embryos occurs in a stepwise manner. In mice, it begins at the late one-cell stage, followed by a minor wave of activation at the early two-cell stage, and then the major genome activation (MGA) at the late two-cell stage. Cellular homeostasis, metabolism, cell cycle, and developmental events are orchestrated before MGA by time-dependent changes in the array of maternal transcripts being translated (i.e., the translatome). more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS2387

Platform:

GPL1261

8 Samples

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Analysis of the polysomal maternal mRNA (MmRNA) populations of oocytes and late one-cell stage embryos. Results provide insight into the mechanisms that regulate the stage-specific translation of MmRNAs in early development.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 2 development stage sets

Platform:

GPL1261

Series:

GSE3962

8 Samples

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