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Link to original content: http://www.ncbi.nlm.nih.gov/pubmed/20688152
A comparison between ribo-minus RNA-sequencing and polyA-selected RNA-sequencing - PubMed Skip to main page content
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Comparative Study
. 2010 Nov;96(5):259-65.
doi: 10.1016/j.ygeno.2010.07.010. Epub 2010 Aug 3.

A comparison between ribo-minus RNA-sequencing and polyA-selected RNA-sequencing

Peng Cui  1 , Qiang Lin, Feng Ding, Chengqi Xin, Wei Gong, Lingfang Zhang, Jianing Geng, Bing Zhang, Xiaomin Yu, Jin Yang, Songnian Hu, Jun Yu
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Free article
Comparative Study

A comparison between ribo-minus RNA-sequencing and polyA-selected RNA-sequencing

Peng Cui et al. Genomics. 2010 Nov.
Free article

Abstract

To compare the two RNA-sequencing protocols, ribo-minus RNA-sequencing (rmRNA-seq) and polyA-selected RNA-sequencing (mRNA-seq), we acquired transcriptomic data-52 and 32 million alignable reads of 35 bases in length-from the mouse cerebrum, respectively. We found that a higher proportion, 44% and 25%, of the uniquely alignable rmRNA-seq reads, is in intergenic and intronic regions, respectively, as compared to 23% and 15% from the mRNA-seq dataset. Further analysis made an additional discovery of transcripts of protein-coding genes (such as Histone, Heg1, and Dux), ncRNAs, snoRNAs, snRNAs, and novel ncRNAs as well as repeat elements in rmRNA-seq dataset. This result suggests that rmRNA-seq method should detect more polyA- or bimorphic transcripts. Finally, through comparative analyses of gene expression profiles among multiple datasets, we demonstrated that different RNA sample preparations may result in significant variations in gene expression profiles.

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