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TranscriptomicsNascent-seq indicates widespread cotranscriptional RNA editing in Drosophila
The RNA editing enzyme ADAR chemically modifies adenosine (A) to inosine (I), which is interpreted by the ribosome as a guanosine. Here we assess cotranscriptional A-to-I editing in Drosophila, by isolating nascent RNA from adult fly heads and subjecting samples to high-throughput sequencing. There ...
ORGANISM(S): Drosophila melanogaster 
2012-05-31 | E-GEOD-37232 | biostudies-arrayexpress
TranscriptomicsWhole-genome sequencing of Saccharomyces cerevisiae CEN.PK2-1C subjected to mtDNA base editing or Mito-BE screen
To identify mutations that occurred in the nuclear and mitochondrial DNA of the yeast subjected to mtDNA base editing or Mito-BE screen, we performed whole-genome sequencing of cultured yeast cells after isolation of mitochondrial DNA.
ORGANISM(S): Saccharomyces cerevisiae 
2024-11-01 | E-MTAB-13701 | biostudies-arrayexpress
TranscriptomicsCAR-adapted PIK3CD base editing enhances T cell anti-tumor potency
Insufficient functional T cell persistence impedes therapeutic success of chimeric antigen receptor (“CAR”) therapies. Here, we performed a CAR-adapted base editing screen of PIK3CD, a key regulator of T cell function, metabolism, and fate. We identified point mutations that beneficially modulate CA...
ORGANISM(S): Homo sapiens 
2025-11-06 | E-MTAB-15749 | biostudies-arrayexpress
TranscriptomicsADAR1-mediated A-to-I RNA editing is essential for erythropoiesis [RNA-seq]
Purpose: RNA editing by ADAR1 is essential for hematopoietic development. The goals of this study were firstly, to identify ADAR1-specific RNA-editing sites by indentifying A-to-I (G) RNA editing sites in wild type mice that were not edited or reduced in editing frequency in ADAR1 deficient murine e...
ORGANISM(S): Mus musculus 
2016-07-24 | E-GEOD-71042 | biostudies-arrayexpress
TranscriptomicsEvolutionary and ontogenetic changes in RNA editing in human, chimpanzee and macaque brains
we used RNA-Seq to quantify the RNA editing level at more than 8,000 previously annotated exonic A-to-I RNA editing sites in two brain regions - prefrontal cortex and cerebellum - of humans, chimpanzees and rhesus macaques. We observed substantial conservation of RNA editing levels between the brain...
ORGANISM(S): Macaca mulatta 
2014-01-07 | E-GEOD-45244 | biostudies-arrayexpress
GenomicsBase editing improvement
Base editing improvement
PRJNA598586 | ENA
GenomicsMiSeq paired-end sequencing of HEK293T cells stably expressing a Cas9/gRNA-dependent editable reporter vector to test novel nucleobase-editing techniques
The goal of these experiments were to test the on-target and target-adjacent editing efficiencies of different single-nucleobase editing systems. Previous studies have shown that tethering DNA mutating enzymes to Cas9-nickase-UGI complexes results in editing of chromosomal DNA. However, these editin...
ORGANISM(S): Homo sapiens 
2020-02-23 | E-MTAB-8742 | biostudies-arrayexpress
TranscriptomicsCAR-adapted PIK3CD base editing enhances T cell anti-tumor potency
Insufficient functional T cell persistence impedes therapeutic success of chimeric antigen receptor (“CAR”) therapies. Here, we performed a CAR-adapted base editing screen of PIK3CD, a key regulator of T cell function, metabolism, and fate. We identified point mutations that beneficially modulate CA...
ORGANISM(S): Homo sapiens 
2025-11-06 | E-MTAB-15746 | biostudies-arrayexpress
TranscriptomicsThe RNA editing enzyme ADAR1 is a key regulatory of innate immune responses to RNA
The ADAR RNA editing enzymes deaminate adenosine bases to inosines in cellular RNAs, recoding open reading frames. Human ADAR1 mutations cause Aicardi-Goutieres Syndrome (AGS) and Adar1 mutant mice showing an aberrant interferon response and death by embryonic day E12.5 model the human disease. Sear...
ORGANISM(S): Mus musculus 
2014-12-19 | E-GEOD-62917 | biostudies-arrayexpress
GenomicsBase editing in Agrobacteria
Efficient CRISPR-mediated base editing in Agrobacterium spp.
PRJEB38304 | ENA
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