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Myosin 7b is a regulatory long noncoding RNA (lncMYH7b) in the human heart [adenovirus either expressing GFP or MYH7b_sp]

ABSTRACT: We have discovered that the alternative splice form of MYH7b is a regulatory non-coding RNA in the human heart. This dataset contains a forced expression of a peptide encoded by a short ORF at the beginning of the alternate splice form (MYH7b_sp) in cardiomyocytes.

ORGANISM(S): Homo sapiens

PROVIDER: GSE157260 | GEO | 2020/09/02

REPOSITORIES: GEO

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Myosin 7b is a regulatory long noncoding RNA (lncMYH7b) in the human heart

Project description:We have discovered that the alternative splice form of MYH7b is a regulatory non-coding RNA in the human heart. This dataset contains manipulation of levels of lncMYH7b in human cardiomyocytes.

2020-09-01 | GSE157217 | GEO

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Project description:Adenovirus is a common human pathogen that relies on host cell processes for transcription and processing of viral RNA and protein production. Although adenoviral promoters, splice junctions, and cleavage and polyadenylation sites have been characterized using low-throughput biochemical techniques or short read cDNA-based sequencing, these technologies do not fully capture the complexity of the adenoviral transcriptome. By combining Illumina short-read and nanopore long-read direct RNA sequencing approaches, we mapped transcription start sites and cleavage and polyadenylation sites across the adenovirus genome. In addition to confirming the known canonical viral early and late RNA cassettes, our analysis of splice junctions within long RNA reads revealed an additional 35 novel viral transcripts. These RNAs include fourteen new splice junctions which lead to expression of canonical open reading frames (ORF), six novel ORF-containing transcripts, and fifteen transcripts encoding for messages that potentially alter protein functions through truncations or fusion of canonical ORFs. In addition, we also detect RNAs that bypass canonical cleavage sites and generate potential chimeric proteins by linking separate gene transcription units. Of these, an evolutionary conserved protein was detected containing the N-terminus of E4orf6 fused to the downstream DBP/E2A ORF. Loss of this novel protein, E4orf6/DBP, was associated with aberrant viral replication center morphology and poor viral spread. Our work highlights how long-read sequencing technologies can reveal further complexity within viral transcriptomes.

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Transcription profiling of Arabidopsis with post-transcriptionally silenced Myosin XI-K

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Myosin 7b is a regulatory long noncoding RNA (lncMYH7b) in the human heart.

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2014-03-25 | GSE54583 | GEO

Expression of Normally Repressed Myosin Heavy Chain 7b in the Mammalian Heart Induces Dilated Cardiomyopathy.

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A new look at adenovirus splicing

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RNA-seq of 36 individuals with autism spectrum disorder

Project description:To assess the clinical impact of splice-altering noncoding mutations in autism spectrum disorder (ASD), we used a deep learning framework (SpliceAI) to predict the splice-altering potential of de novo mutations in 3,953 individuals with ASD from the Simons Simplex Collection. To validate these predictions, we selected 36 individuals that harbored predicted de-novo cryptic splice mutations; each individual represented the only case of autism within their immediate family. We obtained peripheral blood-derived lymphoblastoid cell lines (LCLs) and performed high-depth mRNA sequencing (approximately 350 million 150 bp single-end reads per sample). We used OLego to align the reads against a reference created from hg19 by substituting de novo variants of each individual with the corresponding alternate allele.

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