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10.1261/rna.078969.121

http://scihub22266oqcxt.onion/10.1261/rna.078969.121
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34937774!8848934!34937774
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suck abstract from ncbi


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pmid34937774      RNA 2022 ; 28 (3): 277-289
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  • sgDI-tector: defective interfering viral genome bioinformatics for detection of coronavirus subgenomic RNAs #MMPMID34937774
  • Di Gioacchino A; Legendre R; Rahou Y; Najburg V; Charneau P; Greenbaum BD; Tangy F; van der Werf S; Cocco S; Komarova AV
  • RNA 2022[Mar]; 28 (3): 277-289 PMID34937774show ga
  • Coronavirus RNA-dependent RNA polymerases produce subgenomic RNAs (sgRNAs) that encode viral structural and accessory proteins. User-friendly bioinformatic tools to detect and quantify sgRNA production are urgently needed to study the growing number of next-generation sequencing (NGS) data of SARS-CoV-2. We introduced sgDI-tector to identify and quantify sgRNA in SARS-CoV-2 NGS data. sgDI-tector allowed detection of sgRNA without initial knowledge of the transcription-regulatory sequences. We produced NGS data and successfully detected the nested set of sgRNAs with the ranking M > ORF3a > N>ORF6 > ORF7a > ORF8 > S > E>ORF7b. We also compared the level of sgRNA production with other types of viral RNA products such as defective interfering viral genomes.
  • |*Genome, Viral[MESH]
  • |Computational Biology/*methods[MESH]
  • |High-Throughput Nucleotide Sequencing[MESH]
  • |Open Reading Frames[MESH]
  • |RNA, Viral/*genetics[MESH]


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