GEO DataSets

(Submitter supplied) Transcriptomic analysis of ICM and TE from in vivo-derived equine blastocysts using Illumina sequencing technology

Organism:

Equus caballus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15545

6 Samples

Download data: CSV

(Submitter supplied) This study describes the generation and analysis of the transcriptional profile of bovine inner cell mass (ICM) and trophectoderm (TE), obtained from in vivo developed embryos by using a bovine-embryo specific array (EmbryoGENE) containing 37,238 probes.

Organism:

Bos taurus

Type:

Expression profiling by array

Platform:

GPL13226

8 Samples

Download data: TXT

(Submitter supplied) This study examines the transcriptomes of embryonic stem cells following overexpression of Klf5. Additionally, this study examines the transcripomes of single embryos either treated with scramble siRNA or siRNA targeting Klf5.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21103

20 Samples

Download data: TXT

(Submitter supplied) This study determines the genome-wide binding profile of a V5-tagged KLF5 transription factor exogenously expressed in mouse embryonic stem cells.

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL21103

5 Samples

Download data: BW, TXT

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

Organism:

Sus scrofa; Bos taurus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL26012 GPL26351

36 Samples

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(Submitter supplied) Compared to other mammalian species, porcine oocytes and embryos are characterized by large amounts of lipids stored mainly in the form of droplets in the cytoplasm. The amount and the morphology of LD change throughout the preimplantation development however, relatively little is known about expression of genes involved in lipid metabolism of early embryos. We compared porcine and bovine blastocyst stage embryos as well as dissected inner cell mass (ICM) and trophoblast (TE) cell populations with regard to lipid droplet storage and expression of genes functionally annotated to selected lipid Gene Ontology terms using RNA-seq. more...

Organism:

Sus scrofa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26351

28 Samples

Download data: CSV

(Submitter supplied) Compared to other mammalian species, porcine oocytes and embryos are characterized by large amounts of lipids stored mainly in the form of droplets in the cytoplasm. The amount and the morphology of LD change throughout the preimplantation development however, relatively little is known about expression of genes involved in lipid metabolism of early embryos. We compared porcine and bovine blastocyst stage embryos as well as dissected inner cell mass (ICM) and trophoblast (TE) cell populations with regard to lipid droplet storage and expression of genes functionally annotated to selected lipid Gene Ontology terms using RNA-seq. more...

Organism:

Bos taurus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26012

8 Samples

Download data: CSV

(Submitter supplied) Mammalian preimplantation development involves highly conserved genetic programs across species. However, temporal differences in gene network activation and membership differences in gene modules are also observed. In this study, we focus on understanding the activation of crucial gene networks in trophoectoderm (TE) and inner cell mass across species using human, monkey, and mouse models. By single cell RNA sequencing analysis in cynomolgus monkey early embryos, we find relatively late major embryonic genome activation occurring at early morula stages. more...

Organism:

Mus musculus; Macaca fascicularis; Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL13112 GPL11154 GPL18648

195 Samples

Download data: TXT

(Submitter supplied) Naïve porcine stem cells is supposed to rely on the regulation of unique transcription factor in the early inner cell mass. The expression of Interferon regulatory factor 1 (IRF-1) were detected in aggregation in d6~7 somatic cell nuclear transfer blastocysts, which was supposed to regulate the pluripotency of naïve state. But IRF-1 is reported to be involved in the response to viral infections and initiate a rapid proinflammatory response, while the function of IRF-1 on pluripotency need to be explored. more...

Organism:

Sus scrofa

Type:

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

Platform:

GPL19176

8 Samples

Download data: BW, TXT

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

Organism:

Bos taurus

Type:

Expression profiling by array

Platform:

GPL19376

12 Samples

Download data: TXT

(Submitter supplied) Genes and signaling pathways involved in pluripotency have been studied extensively in mouse and human pre-implantation embryos and embryonic stem (ES) cells. The unsuccessful attempts to generate ES cell lines from other species including cattle suggests that other genes and pathways are involved in maintaining pluripotency in these species. To investigate which genes are involved in bovine pluripotency, expression profiles were generated from morula, blastocyst, trophectoderm and inner cell mass (ICM) samples using microarray analysis. more...

Organism:

Bos taurus

Type:

Expression profiling by array

Platform:

GPL19376

4 Samples

Download data: TXT

(Submitter supplied) Genes and signaling pathways involved in pluripotency have been studied extensively in mouse and human pre-implantation embryos and embryonic stem (ES) cells. The unsuccessful attempts to generate ES cell lines from other species including cattle suggests that other genes and pathways are involved in maintaining pluripotency in these species. To investigate which genes are involved in bovine pluripotency, expression profiles were generated from morula, blastocyst, trophectoderm and inner cell mass (ICM) samples using microarray analysis. more...

Organism:

Bos taurus

Type:

Expression profiling by array

Platform:

GPL19376

8 Samples

Download data: TXT

(Submitter supplied) Early mammalian embryonic transcriptomes are dynamic throughout the process of preimplantation development. Cataloging of primate transcriptomics during early development has been accomplished in humans, but global characterization of transcripts is lacking in the rhesus macaque: a key model for human reproductive processes. We report here the systematic classification of individual macaque transcriptomes using RNA-Seq technology from the germinal vesicle stage oocyte through the blastocyst stage embryo. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platform:

GPL14954

22 Samples

Download data: CSV

(Submitter supplied) In the preimplantation mouse embryo TEAD4 is critical to establishing the trophectoderm (TE)-specific transcriptional program and segregating TE from the inner cell mass (ICM). However, TEAD4 is expressed both in the TE and the ICM. Thus, differential function of TEAD4 rather than expression itself regulates specification of the first two cell lineages. We used ChIP-seq to define genome-wide TEAD4 target genes and asked how transcription of TEAD4 target genes is specifically maintained in the TE. more...

Organism:

Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL11002

3 Samples

Download data: BB, BW

(Submitter supplied) Currently, there is only minimal information elucidating the transcriptional changes occurring during the in vitro transition of the inner cell mass (ICM) towards the human embryonic stem cell (hESC) stage and the role played by the post inner cell mass intermediate (PICMI). In this study, we perform in-depth analysis of the transcriptional heterogeneity between these three stages of hESC derivation in order to correlate their downstream effects on pluripotency states and differentiation. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

9 Samples

Download data: CSV

(Submitter supplied) In humans, the embryonic genome activation (EGA) program is functional by day 3 after fertilization. The 6-8 cell stage embryo (day 3 post-fertilization) starts the process of “compaction” that leads to the generation of the tightly organized cell mass of the morula and is followed by differentiation of the morula into a blastocyst. The transition from day 3 embryos to day 5 blastocysts is likely to be controlled by many and specific changes in the expression of different genes. more...

Organism:

Homo sapiens

Type:

Expression profiling by array; Third-party reanalysis

Platform:

GPL570

6 Samples

Download data: CEL, CHP, TXT

(Submitter supplied) The goal of this study was to discover the underlying mechanisms that drive major changes in gene regulation during preimplantation development in the rhesus monkey. RNAseq data were collected from preimplantation stages (8-cell, morula, blastocyst), and used in conjunction with data from metaphase II stage oocytes to characterize individual gene expression profiles during preimplantation development, identify major groups of co-regulated genes, and identify likely upstream factors driving that gene regulation. more...

Organism:

Macaca mulatta

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL23949 GPL19129

52 Samples

Download data: TXT

(Submitter supplied) Differentiation of totipotent embryonic cells into the first cell lineages (trophectoderm (TE) and inner cell mass (ICM), and further into epiblast (EPI) and primitive endoderm (PE)), although well studied, is only beginning to be understood at the molecular level. An in depth understanding of the regulation of these early differentiation events would enable improvements in the quality of in vitro produced embryos, as well as the study and application of bovine embryonic stem cells. more...

Organism:

Bos taurus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26012

195 Samples

Download data: TXT

(Submitter supplied) We investigate the Inner Cell mass and the Trophectoderm specific response to the presence of insulin, glucose or both in media culture from 1 cell to blatsocyst stage in rabbit embryo

Organism:

Oryctolagus cuniculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24886

24 Samples

Download data: TXT

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

Organism:

Equus caballus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21401

34 Samples

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