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GenomicsBiased allelic expression in human primary fibroblast single cells.
The study of gene expression in mammalian single cells using genomic technologies now provides the possibility to investigate the patterns of allelic gene expression. We have used single-cell RNA sequencing to detect the allele-specific mRNA level in 203 single human primary fibroblast cells over 13...
EGAS00001001009 | EGA
TranscriptomicsAllelic imbalance sequencing reveals that single-nucleotide polymorphisms frequently alter microRNA-directed repression
Genetic changes that help explain the differences between two individuals might create or disrupt sites complementary to microRNAs (miRNAs), but the extent to which such polymorphic sites influence miRNA-mediated repression is unknown. Here, we describe a method to measure mRNA allelic imbalances as...
ORGANISM(S): Mus musculus 
2009-04-26 | E-GEOD-15675 | biostudies-arrayexpress
TranscriptomicsAn integrative multi-dimensional genetic and epigenetic strategy to identify aberrant genes and pathways in cancer: allelic status
dChip analysis of 9 breast cancer cell lines. Data obtained from caBIG Part of a multi-dimensional analysis of gene copy number, allelic status, DNA methylation and gene expression data
ORGANISM(S): Homo sapiens 
2010-12-31 | E-GEOD-21347 | biostudies-arrayexpress
TranscriptomicsProfiling of differential allelic expression in horse, donkey, mule, and hinny placental tissues.
In eutherian mammals, dosage compensation of X-linked genes is achieved by X chromosome inactivation. X inactivation is random in embryonic and adult tissues, but imprinted X inactivation (paternal X silencing) has been identified in the extraembryonic membranes of the mouse, rat, and cow. Few othe...
ORGANISM(S): Equus caballus 
2012-05-29 | E-GEOD-36352 | biostudies-arrayexpress
TranscriptomicsA SNP microarray and FISH-based procedure to detect allelic imbalances in multiple myeloma
A SNP microarray and FISH-based procedure to detect allelic imbalances in multiple myeloma: an integrated genomics approach reveals a wide dosage effect on gene and microRNA expression This SuperSeries is composed of the following subset Series: GSE13591: Integrated genomics approach to detect alle...
ORGANISM(S): Homo sapiens 
2009-05-16 | E-GEOD-16122 | biostudies-arrayexpress
TranscriptomicsNFkB perturbation followed by genome-wide allelic-expression data assessment
We developed a method that perturbs transcription factor followed by monitoring genome-wide allelic expression measurements in living cells. As a model for this novel approach, we chose the factor NFκB. We performed TNF-α induction coupled to inhibition of NFκB in LCLs followed by Allelic Express...
ORGANISM(S): Homo sapiens 
2014-11-03 | E-GEOD-61254 | biostudies-arrayexpress
TranscriptomicsRNA-Seq of oral squamous cell carcinomas and matched normal tissues
RNA-Seq was applied to oral squamous cell carcinomas and matched normal oral tissue to measure gene expression patterns and identify examples of allelic imbalance. Oral squamous cell carcinomas (OSCC) and matched normal tissue from 3 patients.
ORGANISM(S): Homo sapiens 
2010-02-25 | E-GEOD-20116 | biostudies-arrayexpress
GenomicsLocus specific epigenetic modalities of random allelic expression imbalance
Locus specific epigenetic modalities of random allelic expression imbalance
PRJNA623946 | ENA
TranscriptomicsAllelic expression mapping across cell lineages reveal repressor disruption among disease SNPs
Most variants associated to diseases are located in non-coding regions of the genome, and are thought to be regulatory in nature. Cis-regulatory SNPs (cis-rSNPs) impacting transcription can be identified through the mapping of differences in allelic expression (AE). We mapped common cis-rSNPs of pro...
ORGANISM(S): Homo sapiens 
2014-11-03 | E-GEOD-53837 | biostudies-arrayexpress
TranscriptomicsIntegrated genomics approach to detect allelic imbalances in multiple myeloma, SNP data
A SNP microarray and FISH-based procedure to detect allelic imbalances in multiple myeloma: an integrated genomics approach reveals a wide dosage effect on gene and microRNA expression Multiple myeloma (MM) is characterized by marked genomic instability. Beyond structural rearrangements, a relevant...
ORGANISM(S): Homo sapiens 
2009-05-16 | E-GEOD-16121 | biostudies-arrayexpress
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