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GenomicsThe inactive X chromosome adopts a unique three-dimensional conformation that is dependent on Xist RNA.
3D-topology of DNA in the cell nucleus provides a level of transcription regulation beyond the sequence of the linear DNA. To study the relationship between transcriptional activity and spatial environment of a gene, we have used allele-specific 4C-technology to produce high-resolution topology maps...
ORGANISM(S): Mus musculus 
2011-06-24 | E-GEOD-29509 | biostudies-arrayexpress
TranscriptomicsDynamics of gene silencing during X inactivation using allele-specific RNA-Seq
Background: During early embryonic development, one of the two X chromosomes in mammalian female cells is inactivated to compensate for a potential imbalance in transcript levels with male cells containing a single X chromosome. We use mouse female Embryonic Stem Cells (ESCs) with nonrandom XCI and ...
ORGANISM(S): Mus musculus 
2015-06-15 | E-GEOD-60738 | biostudies-arrayexpress
TranscriptomicsAllele specific analysis of the immunoglobulin heavy chain locus
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Mus musculus 
2013-06-01 | E-GEOD-47129 | biostudies-arrayexpress
TranscriptomicsExpression data for resting and activated B and T cells
The IgH locus encodes for part of the antibody exposed by B cells and is important for the immune system. In B cells, one allele produces protein, the other must remain silenced. It was proposed that both alleles reside in different nuclear compartments and that this is important to maintain mono-al...
ORGANISM(S): Mus musculus 
2013-06-01 | E-GEOD-46865 | biostudies-arrayexpress
TranscriptomicsAllele specific analysis of the immunoglobulin heavy chain locus by simultaneous analysis of the productive and the non-productive allele through paired-end 4C sequencing analysis in mature B cells
In developing B cells the immunoglobulin heavy chain (IgH) locus is thought to move from repressive to permissive chromatin compartments to facilitate its scheduled rearrangement. In mature B cells, maintenance of allelic exclusion has been proposed to involve recruitment of the non-productive IgH a...
ORGANISM(S): Mus musculus 
2013-06-01 | E-GEOD-47128 | biostudies-arrayexpress
Genomicsena-DATASET-VUMC-CCA-26-05-2021-09:58:48:372-433 - samples
Control cohort of lymphoma samples sequenced with a hybrid capture panel designed to be able to detect translocations and mutations in lymphoma samples. used in the paper "Robust detection of translocations in lymphoma FFPE samples using Targeted Locus Capture-based sequencing"
EGAD00001007711 | EGA
GenomicsRobust detection of translocations in lymphoma FFPE samples using Targeted Locus Capture-based sequencing - NGS targeted capture control cohort
In routine diagnostic pathology, cancer biopsies are preserved by Formalin-Fixed, Paraffin-Embedding (FFPE) procedures for examination of (intra-) cellular morphology. Such procedures inadvertently induce DNA fragmentation, which compromises sequencing-based analyses of chromosomal rearrangements. Y...
EGAS00001005325 | EGA
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