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TranscriptomicsMaintenance of Long-Range DNA Interactions after Inhibition of Ongoing RNA Polymerase II Transcription.
A relationship exists between nuclear architecture and gene activity and it has been proposed that the activity of ongoing RNA polymerase II transcription determines genome organization in the mammalian cell nucleus. Recently developed 3C and 4C technology allowed us to test the importance of transc...
ORGANISM(S): Mus musculus 
2010-05-26 | E-GEOD-10170 | biostudies-arrayexpress
TranscriptomicsProfiling of copy-number variation in tumors from heterozygous and homozygous Tp53C273X knockout rats
We used Nimblegen HD aCGH to detect copy-number variants between tumor and ear control-DNA samples from heterozygous and homozygous Tp53C273X knockout rats Comparison of tumor DNA with ear control-DNA from the same animal
ORGANISM(S): Rattus norvegicus 
2015-04-09 | E-GEOD-55895 | biostudies-arrayexpress
TranscriptomicsInteractions among Polycomb domains are guided by chromosome architecture
Polycomb group (PcG) proteins bind and regulate hundreds of genes. Previous evidence has suggested that long-range chromatin interactions may contribute to the regulation of PcG target genes. Here, we adapted the Chromosome Conformation Capture on Chip (4C) assay to systematically map chromosomal in...
ORGANISM(S): Drosophila melanogaster 
2011-05-09 | E-GEOD-23166 | 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
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
TranscriptomicsGene expression profiling in wild type and In(3LR)sep larval brain tissue (Drosophila)
We performed a series of microarray expression profile experiments in central brain tissue from 3rd instar larvae, interrogating expression differences between wild type and In(3LR)sep strains. Since our 4C data (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE23166), demonstrated dramatic chan...
ORGANISM(S): Drosophila melanogaster 
2011-05-09 | E-GEOD-26693 | 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
TranscriptomicsPolycomb chromatin domains in Drosophila
This SuperSeries is composed of the following subset Series: GSE23166: Interactions among Polycomb domains are guided by chromosome architecture GSE26693: Gene expression profiling in wild type and In(3LR)sep larval brain tissue (Drosophila) Refer to individual Series
ORGANISM(S): Drosophila melanogaster 
2011-01-31 | E-GEOD-26694 | 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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