Multi-exonic genes generate several developmental stages and tissue-specific transcript isoforms through alternative promoters, alternative splicing (AS)and alternative polyadenylation (APA). The variety of RNA isoforms produced by AS and APA of a single gene increases the diversity of transcripts from the genome. Transcriptional Interference (TI), AS and APA have been reported to be mechanistically linked which is feasible if transcriptional processing occurs co-transcriptionally, i.e. while the RNA polymerases are still engaged with the DNA template. Indeed, it is now widely accepted that in eukaryotes, transcriptional processing mostly happens co-transcriptionally rather than post-transcriptionally. Increasing evidence shows AS and APA can be influenced by DNA methylation and the underlying chromatin state as well as the transcription rate.
The goal of this research topic is centered around addressing the current knowledge gaps in the epigenetic mechanisms that underlie transcription and intragenic DNA methylation governing the output of RNA isoforms in normal development and malignancies. This collection seeks to focus on how transcription itself and epigenetic mechanisms contribute to tissue-specific transcriptomes, either at model loci or genome wide and in any organism.
Themes for contributors to address (both computational and experimental work) include:
• Intragenic promoters-(incidence and action of)
• Overlapping transcripts (-incidence and mechanisms associated with)
• Epigenomic factors in regulating RNA processing
• Alternative RNA processing Transcription speed and alternative transcripts
• Tissue specific gene regulation
Multi-exonic genes generate several developmental stages and tissue-specific transcript isoforms through alternative promoters, alternative splicing (AS)and alternative polyadenylation (APA). The variety of RNA isoforms produced by AS and APA of a single gene increases the diversity of transcripts from the genome. Transcriptional Interference (TI), AS and APA have been reported to be mechanistically linked which is feasible if transcriptional processing occurs co-transcriptionally, i.e. while the RNA polymerases are still engaged with the DNA template. Indeed, it is now widely accepted that in eukaryotes, transcriptional processing mostly happens co-transcriptionally rather than post-transcriptionally. Increasing evidence shows AS and APA can be influenced by DNA methylation and the underlying chromatin state as well as the transcription rate.
The goal of this research topic is centered around addressing the current knowledge gaps in the epigenetic mechanisms that underlie transcription and intragenic DNA methylation governing the output of RNA isoforms in normal development and malignancies. This collection seeks to focus on how transcription itself and epigenetic mechanisms contribute to tissue-specific transcriptomes, either at model loci or genome wide and in any organism.
Themes for contributors to address (both computational and experimental work) include:
• Intragenic promoters-(incidence and action of)
• Overlapping transcripts (-incidence and mechanisms associated with)
• Epigenomic factors in regulating RNA processing
• Alternative RNA processing Transcription speed and alternative transcripts
• Tissue specific gene regulation
