Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Fine mapping of regulatory loci for mammalian gene expression using radiation hybrids II

ABSTRACT: We have mapped regulatory loci for nearly all protein coding genes in the mammalian genome using microarray measurements from a panel of mouse/hamster radiation hybrids. Proof of principle transfection experiment. Pcdh7 (a gene identified as being a regulator of many genes) is transfected into A23 and HEK cells and compared to A23 and HEK cells transfected with an empty vector. Upregulated genes predicted by our approach are compared with the transfection experiments Keywords: tranfection, regulation of gene expression

ORGANISM(S): Mus musculus Homo sapiens Cricetulus griseus

PROVIDER: GSE9066 | GEO | 2008/03/13

SECONDARY ACCESSION(S): PRJNA105325

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Transcription profiling of human HEK cells and hamster A23 cells transfected with Pcdh7 (a gene identified as a regulator of many genes) or empty vector to validate results of prediction of upregulated genes

Project description:We have mapped regulatory loci for nearly all protein coding genes in the mammalian genome using microarray measurements from a panel of mouse/hamster radiation hybrids. Proof of principle transfection experiment. Pcdh7 (a gene identified as being a regulator of many genes) is transfected into A23 and HEK cells and compared to A23 and HEK cells transfected with an empty vector. Upregulated genes predicted by our approach are compared with the transfection experiments Experiment Overall Design: There are 4 microarrays. The first two are biological replicates of A23 (transfected with Pcdh7, labeled with cy5) / A23 (tranfected with empty vector, labeled with cy3). The second two are biological replicates of HEK (transfected with Pcdh7, labeled with cy5) / HEK (tranfected with empty vector, labeled with cy3).

2008-04-03 | E-GEOD-9066 | biostudies-arrayexpress

Fine mapping of regulatory loci for mammalian gene expression using radiation hybrids Ia

2008-03-13 | GSE9033 | GEO

Fine mapping of regulatory loci for mammalian gene expression using radiation hybrids Ib

2008-03-13 | GSE9041 | GEO

Fine mapping of regulatory loci for mammalian gene expression using radiation hybrids (control II)

2008-03-13 | GSE9068 | GEO

Fine mapping of regulatory loci for mammalian gene expression using radiation hybrids (control I)

2008-03-13 | GSE9040 | GEO

Transcription profiling of mouse and hamster radiation hybrids to map regulatory loci for protein coding genes

Project description:We have mapped regulatory loci for nearly all protein coding genes in the mammalian genome using microarray measurements from a panel of mouse/hamster radiation hybrids. Experiment Overall Design: 99 RH cells with biological replicates (198 total) and biological replicates of mouse brain RNA vs. hamster brain RNA and mouse liver RNA vs. hamster liver RNA (4 total)

2008-04-04 | E-GEOD-9033 | biostudies-arrayexpress

Mapping regulatory loci protein coding genes IN THE mouse genome USING microarray measurements FROM a panel OF mouse/hamster radiation hybrids (control I)

Project description:We have mapped regulatory loci for nearly all protein coding genes in the mammalian genome using microarray measurements from a panel of mouse/hamster radiation hybrids. Experiment Overall Design: Five replicas of RNA from the A23 cell line vs. itself. These arrays serve as a control to determine the power to detect cis ceQTLs in this experiment.

2008-04-04 | E-GEOD-9040 | biostudies-arrayexpress

RNA-Sequencing of STING competent and STING-KO cells after transfection with dacA (Listeria monocytogenes)

Project description:HEK-Blue™ ISG Cells and HEK-Blue™ ISG-KO-STING Cells (Invivogen) were transfected with dacA (Listeria monocytogenes) for 12 and 24 hours. Through this approach, we described the STING-dependent and STING-independent transcriptional response to dacA. Our analysis reveals a STING-dependent enrichment of interferon stimulated genes beginning 12 hours post-transfection, and a STING-independent enrichment of genes associated with protein translation and oxidative phosphorylation.

2021-12-01 | GSE165825 | GEO

RNA-DNA hybrids prevent resection at dysfunctional telomeres

Project description:At critically short telomeres TERRA RNA-DNA hybrids become stabilized and drive homology-directed repair (HDR) to delay replicative senescence. However, even at long- and intermediate-length telomeres, not subject to HDR, transient TERRA RNA-DNA hybrids form, suggestive of additional roles. Here, we report that hybrids at telomeres prevent resection by the Exo1 nuclease when telomeres become non-functional. We employed the well-characterized cdc13-1 allele, where telomere resection can be induced in a temperature dependent manner, to demonstrate that ssDNA generation at telomeres is either prevented or augmented when RNA-DNA hybrids are stabilized or destabilized, respectively. The viability of cdc13-1 cells is affected by the presence or absence of hybrids accordingly. These results give insights into an additional role of TERRA at dysfunctional telomeres suggesting that it not only affects replicative senescence rates through HDR activation at critically short telomeres, but may also affect resection rates at intermediate length telomeres in pre-senescent cells.

2023-01-18 | PXD034986 | Pride

Fine mapping of regulatory loci for mammalian gene expression using radiation hybrids Ib

Project description:Fine mapping of regulatory loci for mammalian gene expression using radiation hybrids Ib

| PRJNA105313 | ENA