Transcriptomics

Dataset Information

299

Chimeric RNA profiling demonstrates an association of alveolar rhabdomyosarcoma with specific stages of normal myogenesis


ABSTRACT: Total RNA extracted from differentiated mesenchymal stem cells at four time points (T1,T2,T3,T4) and sequenced using Illumina Hi-seq 2000 platform to generate RNA sequencing with 101bp in read length. Nearly 50 million raw reads were yielded from each sample respectively. We used FastQC to confirm the quality of raw fastq sequencing data, and SOAPfuse software to detect fusion transcripts. Discovering fusion genes from muscle differentiated mesenchymal stem cells

ORGANISM(S): Homo sapiens  

SUBMITTER: Fujun Qin   Hui Li 

PROVIDER: E-GEOD-64032 | ArrayExpress | 2016-02-09

SECONDARY ACCESSION(S): GSE64032SRP051023PRJNA269918

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications


Gene fusions and their products (RNA and protein) were once thought to be unique features to cancer. However, chimeric RNAs can also be found in normal cells. Here, we performed, curated and analyzed nearly 300 RNA-Seq libraries covering 30 different non-neoplastic human tissues and cells as well as 15 mouse tissues. A large number of fusion transcripts were found. Most fusions were detected only once, while 291 were seen in more than one sample. We focused on the recurrent fusions and performed  ...[more]

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