miRNAkey: A software for microRNA deep sequencing analysis

Roy Ronen; Ido Gan; Shira Modai; Alona Sukacheov; Gideon Dror; Eran Halperin; Noam Shomron

doi:10.1093/bioinformatics/btq493

miRNAkey: A software for microRNA deep sequencing analysis

Roy Ronen, Ido Gan, Shira Modai, Alona Sukacheov, Gideon Dror, Eran Halperin, Noam Shomron^*

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

Abstract

Motivation: MicroRNAs (miRNAs) are short abundant non-coding RNAs critical for many cellular processes. Deep sequencing (next-generation sequencing) technologies are being readily used to receive a more accurate depiction of miRNA expression profiles in living cells. This type of analysis is a key step towards improving our understanding of the complexity and mode of miRNA regulation.Results: miRNAkey is a software package designed to be used as a base-station for the analysis of miRNA deep sequencing data. The package implements common steps taken in the analysis of such data, as well as adds unique features, such as data statistics and multiple read determination, generating a novel platform for the analysis of miRNA expression. A user-friendly graphical interface is applied to determine the analysis steps. The tabular and graphical output contains general and detailed reports on the sequence reads and provides an accurate picture of the differentially expressed miRNAs in paired samples.

Original language	English
Article number	btq493
Pages (from-to)	2615-2616
Number of pages	2
Journal	Bioinformatics
Volume	26
Issue number	20
DOIs	https://doi.org/10.1093/bioinformatics/btq493
State	Published - 27 Aug 2010

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title = "miRNAkey: A software for microRNA deep sequencing analysis",

abstract = "Motivation: MicroRNAs (miRNAs) are short abundant non-coding RNAs critical for many cellular processes. Deep sequencing (next-generation sequencing) technologies are being readily used to receive a more accurate depiction of miRNA expression profiles in living cells. This type of analysis is a key step towards improving our understanding of the complexity and mode of miRNA regulation.Results: miRNAkey is a software package designed to be used as a base-station for the analysis of miRNA deep sequencing data. The package implements common steps taken in the analysis of such data, as well as adds unique features, such as data statistics and multiple read determination, generating a novel platform for the analysis of miRNA expression. A user-friendly graphical interface is applied to determine the analysis steps. The tabular and graphical output contains general and detailed reports on the sequence reads and provides an accurate picture of the differentially expressed miRNAs in paired samples.",

author = "Roy Ronen and Ido Gan and Shira Modai and Alona Sukacheov and Gideon Dror and Eran Halperin and Noam Shomron",

note = "Funding Information: Funding: Chief Scientist Office, Ministry of Health, Israel; The Kurz-Lion Foundation; The Tel Aviv University, Faculty of Medicine, Schreiber Foundation; The Wolfson Family Charitable Fund (to N.S.); Israeli Science Foundation (04514831); the National Science Foundation (IIS-071325412 to E.H.); Faculty fellow of the Edmond Safra Bioinformatics program at Tel-Aviv University (to E.H.); Edmond Safra Bioinformatics Program at Tel Aviv University and the Israeli Science Foundation (04514831) to R.R. in part.",

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month = aug,

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doi = "10.1093/bioinformatics/btq493",

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AU - Dror, Gideon

AU - Halperin, Eran

AU - Shomron, Noam

N1 - Funding Information: Funding: Chief Scientist Office, Ministry of Health, Israel; The Kurz-Lion Foundation; The Tel Aviv University, Faculty of Medicine, Schreiber Foundation; The Wolfson Family Charitable Fund (to N.S.); Israeli Science Foundation (04514831); the National Science Foundation (IIS-071325412 to E.H.); Faculty fellow of the Edmond Safra Bioinformatics program at Tel-Aviv University (to E.H.); Edmond Safra Bioinformatics Program at Tel Aviv University and the Israeli Science Foundation (04514831) to R.R. in part.

PY - 2010/8/27

Y1 - 2010/8/27

N2 - Motivation: MicroRNAs (miRNAs) are short abundant non-coding RNAs critical for many cellular processes. Deep sequencing (next-generation sequencing) technologies are being readily used to receive a more accurate depiction of miRNA expression profiles in living cells. This type of analysis is a key step towards improving our understanding of the complexity and mode of miRNA regulation.Results: miRNAkey is a software package designed to be used as a base-station for the analysis of miRNA deep sequencing data. The package implements common steps taken in the analysis of such data, as well as adds unique features, such as data statistics and multiple read determination, generating a novel platform for the analysis of miRNA expression. A user-friendly graphical interface is applied to determine the analysis steps. The tabular and graphical output contains general and detailed reports on the sequence reads and provides an accurate picture of the differentially expressed miRNAs in paired samples.

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miRNAkey: A software for microRNA deep sequencing analysis

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