Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA Sequencing Facilitates Quantitative Analysis of Transcriptomes of H1 derived cells and H1 after MSX2-knockout derived cells at Day8 after human early hematopoietic differentiation .

ABSTRACT: RNA Sequencing Facilitates Quantitative Analysis of Transcriptomes of H1 derived cells and H1 after MSX2-knockout derived cells at Day8 after human early hematopoietic differentiation .

PROVIDER: PRJNA557665 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

RNA Sequencing Facilitates Quantitative Analysis of Transcriptomes of H1 derived cells and H1 after MSX2-knockout derived cells at Day8 after human early hematopoietic differentiation .

Project description:Purpose: The goals of this study are to verify MSX2 knock is suffice to promote hematopoiesis during human early hematopoietic differentiation through comparing the transcriptome profilings in WT samples and MSX2-knockout samples collected at day 8 after hematopoietic differentiation. Method: mRNA profiles of hESC samples collected at day 8 after hematopoiesis differentiation were generated by deep sequencing using Illumina GAIIx. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks. qRT–PCR validation was performed using TaqMan and SYBR Green assays Conclusions: MSX2 knock is suffice to promote hematopoiesis during early hematopoietic differentiation of H1 cells.

2019-08-01 | GSE135171 | GEO

RNA Sequencing Facilitates Quantitative Analysis of Transcriptomes of H1 derived CD31+ cells and H1 after HAND1-overexpression derived CD31+ cells at Day8 after human early hematopoietic differentiation .

Project description:RNA Sequencing Facilitates Quantitative Analysis of Transcriptomes of H1 derived CD31+ cells and H1 after HAND1-overexpression derived CD31+ cells at Day8 after human early hematopoietic differentiation .

| PRJNA556720 | ENA

Regulation of endogenous retrovirus-derived regulatory elements by GATA2/3 and MSX2 in human trophoblast stem cells (ChIP-seq)

Project description:The placenta is an organ with extraordinary phenotypic diversity in eutherian mammals. Recent evidence suggest that numerous human placental enhancers are evolved from lineage-specific insertions of endogenous retroviruses (ERVs), yet the transcription factors (TFs) underlying their regulation remain largely elusive. Here, by first focusing on MER41, a primate-specific ERV family previously linked to placenta and innate immunity, we uncover the binding motifs of multiple crucial trophoblast TFs (GATA2/3, MSX2, GRHL2) in addition to innate immuninty TFs STAT1 and IRF1. Integration of ChIP-Seq data confirms the binding of GATA2/3 and MSX2 on the majority of MER41-derived enhancers in human trophoblast stem cells (TSCs). Notably, the usb-family composition of MER41-derived enhancers that are active in human TSCs are distinct from those activated upon interferon stimulation, which is determined by the binding of trophoblast TFs. We further demonstrate that GATA2/3 and MSX2 have prevalent binding on numerous other ERV families – indicating their broad impact on ERV-derived placental enhancers. Functionally, the derepression of many syncytiotrophoblast genes after disruption of MSX2 is likely to be mediated by enhancers derived from ERVs – suggesting ERVs are also important for mediating transcriptional repression in human TSCs. Overall, this study characterized the prevalent binding of GATA2/3, MSX2 and their co-factors on ERV-derived enhancers in human TSCs and provided mechanistic insights into the importance of ERVs in human trophoblast regulatory network.

2023-01-01 | GSE209540 | GEO

Regulation of endogenous retrovirus-derived regulatory elements by GATA2/3 and MSX2 in human trophoblast stem cells (RNA-seq)

2023-01-01 | GSE209536 | GEO

RNA Sequencing Facilitates Quantitative Analysis of Transcriptomes of H1, H1 derived APLNR+ cells, CD31+CD34+ cells and CD43+ cells during human early hematopoietic differentiation

Project description:Purpose: The goals of this study are to verify the dynamic changes of MAGs in H1 derived different population of cells during human early hematopoietic differentian. Methods: mRNA profiles of hESC samples collected from day 0 to day 8 after hematopoiesis differentiation were generated by deep sequencing using Illumina GAIIx. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two methods: Burrows–Wheeler Aligner (BWA) followed by ANOVA (ANOVA) and TopHat followed by Cufflinks. qRT–PCR validation was performed using TaqMan and SYBR Green assays Conclusions:MAGs showed convincingly dynamic expression during early hematopoietic differentiation of H1 cells

2019-07-26 | GSE134907 | GEO

MSX2 safeguards syncytiotrophoblast fate of human TSCs

Project description:The majority of placental pathologies arise from failures in trophoblast differentiation, yet the underlying transcriptional regulation is poorly understood. Here, we use human trophoblast stem cells to elucidate the function of the transcription factor MSX2 in trophoblast specification. We show that depletion of MSX2 de-represses the syncytiotrophoblast program, while forced expression of MSX2 blocks it. We demonstrate that a large proportion of the affected genes are directly bound and regulated by MSX2 and identify components of the SWI/SNF complex as its strong interactors. Our findings uncover the pivotal role of MSX2 in cell fate decisions that govern human placental development and function.

2021-08-28 | GSE165970 | GEO

The impact on reprogramming of Msx2

Project description:We report that we make the high-profiling for transcriptome to detect the impact on reprogramming of transcription factor Msx2 at different time points during reprogramming. Based on the technology of overexpression and Knock down for Msx2, we can observe the changes of transcriptomes in contrast with control group. We get the connections between Msx2 and BMP signaling, and other meaningful results, but we should make further validation.

2018-05-08 | GSE114120 | GEO

RNA Sequencing Facilitates Quantitative Analysis of Transcriptomes of H1, H1 derived APLNR+ cells, CD31+CD34+ cells and CD43+ cells during human early hematopoietic differentiation

Project description:RNA Sequencing Facilitates Quantitative Analysis of Transcriptomes of H1, H1 derived APLNR+ cells, CD31+CD34+ cells and CD43+ cells during human early hematopoietic differentiation

| PRJNA556721 | ENA

RNA Sequencing Facilitates Quantitative Analysis of Transcriptomes of H1 derived cells with or without SB431542 treatment at Day8 after human early hematopoietic differentiation .

Project description:RNA Sequencing Facilitates Quantitative Analysis of Transcriptomes of H1 derived cells with or without SB431542 treatment at Day8 after human early hematopoietic differentiation .

| PRJNA556723 | ENA

Transcriptome profiling of isolated mammalian myotube cultures that ectopically overexpress msx2

Project description:In contrast to urodele amphibians and teleost fish, mammals lack the regenerative responses to replace large body parts. Amphibian and fish regeneration uses dedifferentiation, i.e. reversal of differentiated state, as a means to produce progenitor cells to eventually replace damaged tissues. Therefore, activation of dedifferentiation response in mammalian tissues holds an immense promise for human regenerative medicine. msx2 expression has been shown to peak at the early time points of amphibian limb regeneration. Despite this temporal importance in the heterogenous regenerating limb tissues, the potential role of msx2 in dedifferentiation was previously not addressed in salamander or mammalian muscle cells. In order to test this, we ectopically overexpressed msx2 in mammalian myotubes and profiled their transcriptomes using next generation sequencing. We identified 4964 up-regulated and 4464 down-regulated transcripts in myotubes compared to myoblasts (uninduced GFP control cells; ≥ 1.5 fold; FDR corrected p-values < 0.01). Upon ectopic msx2 expression in myotubes, 923 transcripts were downregulated, whereas 1283 transcripts were upregulated. Based on msx2’s potential role in dedifferentiation, we reasoned that the transcripts, which are normally upregulated in myotubes in comparison to myoblasts, should go down upon msx2-expression. In accord with this idea, 575 myotube-enriched transcripts were downregulated after one day of ectopic msx2 expression. Similarly, 331 myoblast-enriched transcripts were upregulated upon msx2 expression.

2015-10-01 | GSE65619 | GEO

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data