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Trophoblast giant cell underrepresentation (sequencing)

ABSTRACT: We characterized the mouse trophoblast giant cell epigenome and gene expression profiles. We then compared these data to our data on underrepresentation in the polyploid trophoblast giant cells.

ORGANISM(S): Mus musculus

PROVIDER: GSE50561 | GEO | 2014/05/29

SECONDARY ACCESSION(S): PRJNA218198

REPOSITORIES: GEO

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Trophoblast giant cell underrepresentation (sequencing)

Project description:We characterized the mouse trophoblast giant cell epigenome and gene expression profiles. We then compared these data to our data on underrepresentation in the polyploid trophoblast giant cells. We profiled 5 histone modifications (+ chromatin input) using ChIP-Seq, and digital expression profiles (3' RNA-Seq) for trophoblast giant cells derived from mouse. Furthermore, we profiled digital expression profiles (3' RNA-Seq) for in vivo trophoblast giant cells samples from e9.5 wildtype mouse trophoblast giant cells. We found that underrepresented domains in trophoblast giant cells are enriched for repressive marks and anti-correlate with active marks and transcription.

2014-05-29 | E-GEOD-50561 | biostudies-arrayexpress

Trophoblast giant cell underrepresentation (CGH)

Project description:We characterized regions of underrepresentation that are specific to mouse polyploid trophoblast giant cells.

2014-05-29 | GSE50543 | GEO

Trophoblast giant cell underrepresentation (CGH)

Project description:We characterized regions of underrepresentation that are specific to mouse polyploid trophoblast giant cells. We performed array Comparative Genomics Hybridization (aCGH) to examine copy number variation (CNV) in mouse polyploid trophoblast giant cells (TGCs). We performed the following experiments in duplicates to examine CNV during various stages of in vivo and in vitro TGC development: e9.5 TGCs vs. embryonic controls, e11.5 TGCs vs. embryonic controls, e13.5 TGCs vs. embryonic controls, e16.5 TGCs vs. embryonic controls, as well as TGCs cultured 3, 5 and 7 days vs. 2N trophoblast stem cells. We also performed the following controls to show that underrepresentation is only found in polypoid trophoblast giant cells and not in either 2N placental cell types nor in other types of polyploid cells: 2N placenta disk vs. embryonic controls, 2N trophoblast stem cells vs. embryonic stem cells, and polyploid Megakaryocytes vs. embryonic controls. When possible, we performed arrays with the test and control samples of opposite sex (F-female, M-male), as an internal control for the array.

2014-05-29 | E-GEOD-50543 | biostudies-arrayexpress

Trophoblast giant cell underrepresentation (tiling)

Project description:We profiled trophoblast stem cell replication-timing in order to compare these data to our data on underrepresented (UR) domainss in trophoblast giant cells (polyploid cells derived from 2N trophoblast stem cells). We found that UR domains are formed from late-replicating regions in tropoblast stem cells. Profile of early and late replicating regions in cultured trophoblast stem cells.

2014-05-29 | E-GEOD-50207 | biostudies-arrayexpress

Trophoblast giant cell underrepresentation (tiling)

2014-05-29 | GSE50207 | GEO

Mus musculus strain:C57BL/6; C57BL/6x129SVE

Project description:Underrepresentation in polyploid trophoblast giant cells

| PRJNA213010 | ENA

Molecular function of Prdm1/Blimp1 in trophoblast giant cell differentiation.

2016-03-14 | GSE74409 | GEO

Molecular function of Prdm1/Blimp1 in trophoblast giant cell differentiation.

Project description:Expression profiling of wild-type and Prdm1 null mouse trophoblast giant cell cultures using Illumina whole genome mouse V2 arrays. The hypothesis tested was that Prdm1/Blimp1 regulates expression of genes required for spiral artery trophoblast giant cell function. Prdm1 null and littermate control wild-type trophoblast stem cell clones were generated from blastocyst outgrowths. Total RNA was obtained from multiple replicates of four wild-type TS cell clones and four Prdm1 null TS cell clones differenitated for zero, two, four and six days by growth factor withdrawal and hybridized to Illumina WG6_V2 arrays

2016-03-14 | E-GEOD-74409 | biostudies-arrayexpress

Project description:Trophoblast giant cell underrepresentation

| PRJNA218013 | ENA

Trophoblast giant cell underrepresentation

Project description:This SuperSeries is composed of the SubSeries listed below. The BioProject ID on this superSeries record also encompasses a genome sequencing project under BioProject PRJNA213010.

2014-05-29 | GSE50585 | GEO

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