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sRNAbench and sRNAtoolbox 2019: intuitive fast small RNA profiling and differential expression
2019
Nucleic Acids Research
Preserved Fulltext
These developments imply that fast and easy-to-use tools for expression profiling and subsequent downstream analysis of miRNA-seq data are essential to many researchers. ...
Key features in this sRNAtoolbox release include addition of all major RNA library preparation protocols to sRNAbench and improvements in sRNAde, a tool that summarizes several aspects of small RNA sequencing ...
In 2015, we introduced sRNAtoolbox (9), a collection of small RNA research tools built around sRN-Abench, providing different downstream analysis including consensus differential expression, target prediction ...
doi:10.1093/nar/gkz415
pmid:31114926
pmcid:PMC6602500
fatcat:pzqld3qrmjfkxbe3tgfnmzcixy
miRge3.0: a comprehensive microRNA and tRF sequencing analysis pipeline
[article]
2021
bioRxiv
pre-print
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A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2021; you can also visit the original URL.
The file type is application/pdf.
MicroRNAs and tRFs are classes of small non-coding RNAs, known for their roles in translational regulation of genes. ...
tool. miRge3.0 also has speed improvements benchmarked to miRge2.0, Chimira and sRNAbench. ...
ACKNOWLEDGEMENTS The authors thank the Pathology Department IT department for providing a Mac computer for the developing and testing of miRge3.0 GUI on Mac OS (OS-X) and the use of the Ares Linux server ...
doi:10.1101/2021.01.18.427129
fatcat:gylwbvxpqfdvhaz4wzprbtdrnq
Interactive Web-based Annotation of Plant MicroRNAs with iwa-miRNA
[article]
2020
bioRxiv
pre-print
Preserved Fulltext
A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2021; you can also visit the original URL.
The file type is application/pdf.
The large-scale detection and profiling of miRNAs has accelerated with the development of high-throughput small RNA sequencing (sRNA-Seq) techniques and bioinformatics tools. ...
MicroRNAs (miRNAs) are important regulators of gene expression. ...
All authors read and approved the final manuscript. . sRNAbench and sRNAtoolbox 2019: intuitive fast small RNA profiling and differential 433 expression. ...
doi:10.1101/2020.12.01.405399
fatcat:sdxm4mjom5h5lnzao2zjotuku4