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10.1186/s12985-016-0539-x http://scihub22266oqcxt.onion/10.1186/s12985-016-0539-x C4890495!4890495!27250973     free     free     free Deprecated: Implicit conversion from float 209.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 209.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 209.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 209.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534       Virol+J 2016 ; 13 (ä): ä Nephropedia Template TP {{tp|p=27250973|t=2016. Next-generation sequencing for virus detection: covering all the bases |pdf=|usr=}}{{27250973}} gab.com Text Next-generation sequencing for virus detection: covering all the bases JO: Virol J http://www.kidney.de/pget.php?&tw=1&pmid=27250973 #FOAvip Background: The use of next-generation sequencing has become an established method for virus detection. Efficient study design for accurate detection relies on the optimal amount of data representing a significant portion of a virus genome. Findings: In this study, genome coverage at different sequencing depths was determined for a number of viruses, viroids, hosts and sequencing library types, using both read-mapping and de novo assembly-based approaches. The results highlighted the strength of ribo-depleted RNA and sRNA in obtaining saturated genome coverage with the least amount of data, while even though the poly(A)-selected RNA yielded virus-derived reads, it was insufficient to cover the complete genome of a non-polyadenylated virus. The ribo-depleted RNA data also outperformed the sRNA data in terms of the percentage of coverage that could be obtained particularly with the de novo assembled contigs. Conclusion: Our results suggest the use of ribo-depleted RNA in a de novo assembly-based approach for the detection of single-stranded RNA viruses. Furthermore, we suggest that sequencing one million reads will provide sufficient genome coverage specifically for closterovirus detection. Electronic supplementary material: The online version of this article (doi:10.1186/s12985-016-0539-x) contains supplementary material, which is available to authorized users. Twit Text FOAVip Next-generation sequencing for virus detection: covering all the bases ????Virol J http://www.kidney.de/pget.php?&tw=1&pmid=27250973 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=27250973 #FOAvip English Wikipedia <ref>{{Cite pmid|27250973}}</ref> Next-generation sequencing for virus detection: covering all the bases #MMPMID27250973 Visser M; Bester R; Burger JT; Maree HJ Virol J 2016[]; 13 (ä): ä PMID27250973show ga Background: The use of next-generation sequencing has become an established method for virus detection. Efficient study design for accurate detection relies on the optimal amount of data representing a significant portion of a virus genome. Findings: In this study, genome coverage at different sequencing depths was determined for a number of viruses, viroids, hosts and sequencing library types, using both read-mapping and de novo assembly-based approaches. The results highlighted the strength of ribo-depleted RNA and sRNA in obtaining saturated genome coverage with the least amount of data, while even though the poly(A)-selected RNA yielded virus-derived reads, it was insufficient to cover the complete genome of a non-polyadenylated virus. The ribo-depleted RNA data also outperformed the sRNA data in terms of the percentage of coverage that could be obtained particularly with the de novo assembled contigs. Conclusion: Our results suggest the use of ribo-depleted RNA in a de novo assembly-based approach for the detection of single-stranded RNA viruses. Furthermore, we suggest that sequencing one million reads will provide sufficient genome coverage specifically for closterovirus detection. Electronic supplementary material: The online version of this article (doi:10.1186/s12985-016-0539-x) contains supplementary material, which is available to authorized users. äNext-generation sequencing for virus detection: covering all the bases(epmc).pdf DeepDyve Pubget Overpricing