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H3K27me3 and H3K4me2 profiles along the length of the X chromosome in trophoblast stem (TS) cells and Extra-embryonic endoderm stem cells (XEN), ChIP-chip

ABSTRACT: This analysis includes H3K27me3 and H3K4me2 profiles along the length of the X-chromosome in male (F2) and female (F3) TS cells and in male (GHP7/7) and female (GHP7/9) XEN cells.

ORGANISM(S): Mus musculus

PROVIDER: GSE50587 | GEO | 2014/06/01

SECONDARY ACCESSION(S): PRJNA217988

REPOSITORIES: GEO

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H3K27me3 and H3K4me2 profiles along the length of the X chromosome in trophoblast stem (TS) cells and Extra-embryonic endoderm stem cells (XEN), ChIP-chip

Project description:This analysis includes H3K27me3 and H3K4me2 profiles along the length of the X-chromosome in male (F2) and female (F3) TS cells and in male (GHP7/7) and female (GHP7/9) XEN cells. Analysis of H3K27me3 and H3K4me2 profiles in four different cell populations. Two independent biological replicates for each cell population are provided. The array includes approx. 162,5 Mb of the X chromosome and approx. 14,6 Mb of chromosome 17 as a control.

2014-06-01 | E-GEOD-50587 | biostudies-arrayexpress

H3K27me3 profiles along the length of the X chromosome in trophoblast stem (TS) cells showing inverted X-inactivation profiles, ChIP-chip

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H3K27me3 profiles along the length of the X chromosome in trophoblast stem (TS) cells showing inverted X-inactivation profiles, ChIP-chip

Project description:This analysis includes H3K27me3 profiles along the length of the X-chromosome in male (F2) and female (F3) TS cells and in female TS cells showing a complete reversal of X-chromosome inactivation (F3 clone1#A). Analysis of H3K27me3 profiles in three different cell populations. Two independent biological replicates for each cell population are provided. The array includes approx. 162,5 Mb of the X chromosome and approx. 14,6 Mb of chromosome 17 as a control.

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CUT&Tag for GATA factors, H3K27ac and H3K27me3 in female XEN and TS cells

Project description:As the master regulator of X-chromosome inactivation (XCI), the Xist RNA is expressed nearly ubiquitously in female mice. Xist is only absent in the germ line and at the pluripotent state. Xist is generally assumed to be expressed “by default” in females, while being actively repressed in the few tissues where it is silent. Whether activating mechanisms also contribute remained largely unknown. Through a pooled CRISPR screen we identify the GATA family of transcription factors as potent direct activators of Xist. We describe a GATA-responsive regulatory element (RE79), located ~100 kb upstream of the Xist promoter. In cell lines derived from the two extraembryonic lineages, XEN and TS cells, where imprinted Xist expression is maintained, RE79 is bound by different sets of GATA factors expressed in those tissues. Here we use CUT&Tag on GATA factors to profile their involvement at the X inactivation center in XEN and TS cells.

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H3K27me3 profiles along the length of the X chromosome in trophoblast stem (TS) cells, ChIP-chip

2012-11-02 | GSE32655 | GEO

H3K27me3 profiles along the length of the X chromosome in trophoblast stem (TS) cells, ChIP-chip

Project description:This analysis includes H3K27me3 profiles along the length of the X-chromosome in male (F2) and female (K4) TS cells and in female TS cells showing local reversals of imprinted X-chromosome inactivation (K4GFP). Data also includes H3K27me3 ChIP-chip profiles in Eed-/- mutant male and female TS cells obtained from Magnuson laboratory (Kalantry S. et al., Nat Cell Biol, 2006). Analysis of H3K27me3 profiles in five different cell populations. Three independent biological replicates for each wild-type female cell population and two independent biological replicates for the wild-type male cell population are provided. The ChIP-chip analysis was also carried out in Eed-/- male and female TS cells lacking H3K27me3 for comparison (one replicate). The array includes approx. 162,5 Mb of the X chromosome and approx. 14,6 Mb of chromosome 17 as a control.

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Mouse ES cells versus XEN cells

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Derivation and characterization of chimera-competent eXtra-Embryonic eNdoderm (XEN) cells from pig blastocysts

Project description:We report for the first time, the derivation and characterization of extra-embryonic endoderm (XEN) cells from primitive endoderm (PrE) of porcine (p) embryos. The pXEN cells can be reliably and reproducibly generated from parthenogenic, in vitro or in vivo derived embryos, and express canonical PrE or XEN cell genes (GATA4, GATA6, SOX17, SALL4, FOXA2, and HNF4A). Transcriptome analysis of pXEN cells revealed close resemblance to yolk sac than any other embryonic or extraembryonic tissue. When introduced into blastocyst stage embryo, the pXEN cells contributed to wide-spread chimerism including visceral yolk sac, chorion, as well as embryonic gut and liver primordium in the fetus. The pXEN cells were shown to be an efficient nuclear donor for generating cloned offspring. Taken together, pXEN cells fulfil a longstanding need for a stable, chimera-competent, and nuclear transfer-compatible porcine embryonic cells with applications for genome editing in livestock.

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