Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Specificity, propagation and memory of pericentric heterochromatin in mouse fibroblasts: H3S10p

ABSTRACT: ChIP-seq of H3S10p in synchronized and asynchronous ESCs and RNA-seq of ESCs after inhibition of AURKB ChIP-seq of H3S10p and RNA-seq for ESCs treated with ZM-447439

ORGANISM(S): Mus musculus

SUBMITTER: Jan-Philipp Mallm

PROVIDER: E-GEOD-67133 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Aurora Kinase B Regulates Telomerase Activity via a Centromeric RNA in Stem Cells.

Mallm Jan-Philipp JP Rippe Karsten K

Cell reports 20150604 10

Non-coding RNAs can modulate histone modifications that, at the same time, affect transcript expression levels. Here, we dissect such a network in mouse embryonic stem cells (ESCs). It regulates the activity of the reverse transcriptase telomerase, which synthesizes telomeric repeats at the chromosome ends. We find that histone H3 serine 10 phosphorylation set by Aurora kinase B (AURKB) in ESCs during the S phase of the cell cycle at centromeric and (sub)telomeric loci promotes the expression of ...[more]

PMID: 26051938

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Project description:"The main goal of the project is to develop a new generation of bioinformatics resources for the integrative analysis of multiple types of omics data. These resources include both novel statistical methodologies as well as user-friendly software implementations. STATegra methods address many aspects of the omics data integration problem such as the design of multiomics experiments, integrative transcriptional and regulatory networks, integrative variable selection, data fusion, integration of public domain data, and integrative pathway analysis. To support method development STATegra uses a model biological system, namely the differentiation process of mouse pre-B-cells. The STATegra consortium generated data focused on a critical step in the differentiation of B lymphocytes, which are key components of the adaptive immune system. Transcription factors of the Ikaros family are central to the normal differentiation of B cell progenitors and their expression increases in response to developmental stage-specific signals to terminate the proliferation of B cell progenitors and to initiate their differentiation. In particular, a novel biological system that models the transition from the pre-BI stage to the pre-BII subsequent stage, where B cell progenitors undergo growth arrest and differentiation, was used. The approach involves a pre-B cell line, B3 , and an inducible version of the Ikaros transcription factor, Ikaros-ERt2. Ikaros factors act to down-regulate genes that drive proliferation and to simultaneously up-regulate the expression of genes that promote the differentiation of B cell progenitors. Hence, in the B3 system, before induction of Ikaros, cells proliferate and their gene expression pattern is similar to proliferating B cell progenitors in vivo. Following Ikaros induction, B3 cells undergo gene expression changes that resemble those that occur in vivo during the transition from cycling to resting pre-B cells, followed by a marked reduction in cellular proliferation and by G1 arrest. On this system the consortium has created a high-quality data collection consisting of a replicated time course using seven different omics platforms: RNA-seq, miRNA-seq, ChIP-seq, DNase-seq, Methyl-seq, proteomics and metabolomics, which is used to assess and to validate STATegra methods."

Dataset Information

Specificity, propagation and memory of pericentric heterochromatin in mouse fibroblasts: H3S10p

Publications

Aurora Kinase B Regulates Telomerase Activity via a Centromeric RNA in Stem Cells.

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