{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,12]],"date-time":"2026-03-12T05:13:57Z","timestamp":1773292437105,"version":"3.50.1"},"reference-count":14,"publisher":"Oxford University Press (OUP)","issue":"20","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2010,10,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>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.<\/jats:p>\n               <jats:p>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.<\/jats:p>\n               <jats:p>Availability and implementation: See http:\/\/ibis.tau.ac.il\/miRNAkey<\/jats:p>\n               <jats:p>Contact: \u00a0nshomron@post.tau.ac.il<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btq493","type":"journal-article","created":{"date-parts":[[2010,8,28]],"date-time":"2010-08-28T00:40:38Z","timestamp":1282956038000},"page":"2615-2616","source":"Crossref","is-referenced-by-count":72,"title":["miRNAkey: a software for microRNA deep sequencing analysis"],"prefix":"10.1093","volume":"26","author":[{"given":"Roy","family":"Ronen","sequence":"first","affiliation":[{"name":"1 Department of Cell and Developmental Biology, Sackler Faculty of Medicine, Tel Aviv University, 2The Academic College of Tel-Aviv-Yaffo, Tel\u2212Aviv, Israel, 3International Computer Science Institute, Berkeley, CA, USA and 4School of Computer Science and Department of Molecular Microbiology and Biotechnology, George Wise Faculty of Life Science, Tel-Aviv University, Tel-Aviv, Israel"}]},{"given":"Ido","family":"Gan","sequence":"additional","affiliation":[{"name":"1 Department of Cell and Developmental Biology, Sackler Faculty of Medicine, Tel Aviv University, 2The Academic College of Tel-Aviv-Yaffo, Tel\u2212Aviv, Israel, 3International Computer Science Institute, Berkeley, CA, USA and 4School of Computer Science and Department of Molecular Microbiology and Biotechnology, George Wise Faculty of Life Science, Tel-Aviv University, Tel-Aviv, Israel"}]},{"given":"Shira","family":"Modai","sequence":"additional","affiliation":[{"name":"1 Department of Cell and Developmental Biology, Sackler Faculty of Medicine, Tel Aviv University, 2The Academic College of Tel-Aviv-Yaffo, Tel\u2212Aviv, Israel, 3International Computer Science Institute, Berkeley, CA, USA and 4School of Computer Science and Department of Molecular Microbiology and Biotechnology, George Wise Faculty of Life Science, Tel-Aviv University, Tel-Aviv, Israel"}]},{"given":"Alona","family":"Sukacheov","sequence":"additional","affiliation":[{"name":"1 Department of Cell and Developmental Biology, Sackler Faculty of Medicine, Tel Aviv University, 2The Academic College of Tel-Aviv-Yaffo, Tel\u2212Aviv, Israel, 3International Computer Science Institute, Berkeley, CA, USA and 4School of Computer Science and Department of Molecular Microbiology and Biotechnology, George Wise Faculty of Life Science, Tel-Aviv University, Tel-Aviv, Israel"}]},{"given":"Gideon","family":"Dror","sequence":"additional","affiliation":[{"name":"1 Department of Cell and Developmental Biology, Sackler Faculty of Medicine, Tel Aviv University, 2The Academic College of Tel-Aviv-Yaffo, Tel\u2212Aviv, Israel, 3International Computer Science Institute, Berkeley, CA, USA and 4School of Computer Science and Department of Molecular Microbiology and Biotechnology, George Wise Faculty of Life Science, Tel-Aviv University, Tel-Aviv, Israel"}]},{"given":"Eran","family":"Halperin","sequence":"additional","affiliation":[{"name":"1 Department of Cell and Developmental Biology, Sackler Faculty of Medicine, Tel Aviv University, 2The Academic College of Tel-Aviv-Yaffo, Tel\u2212Aviv, Israel, 3International Computer Science Institute, Berkeley, CA, USA and 4School of Computer Science and Department of Molecular Microbiology and Biotechnology, George Wise Faculty of Life Science, Tel-Aviv University, Tel-Aviv, Israel"},{"name":"1 Department of Cell and Developmental Biology, Sackler Faculty of Medicine, Tel Aviv University, 2The Academic College of Tel-Aviv-Yaffo, Tel\u2212Aviv, Israel, 3International Computer Science Institute, Berkeley, CA, USA and 4School of Computer Science and Department of Molecular Microbiology and Biotechnology, George Wise Faculty of Life Science, Tel-Aviv University, Tel-Aviv, Israel"}]},{"given":"Noam","family":"Shomron","sequence":"additional","affiliation":[{"name":"1 Department of Cell and Developmental Biology, Sackler Faculty of Medicine, Tel Aviv University, 2The Academic College of Tel-Aviv-Yaffo, Tel\u2212Aviv, Israel, 3International Computer Science Institute, Berkeley, CA, USA and 4School of Computer Science and Department of Molecular Microbiology and Biotechnology, George Wise Faculty of Life Science, Tel-Aviv University, Tel-Aviv, Israel"}]}],"member":"286","published-online":{"date-parts":[[2010,8,27]]},"reference":[{"key":"2023012507555167000_B1","doi-asserted-by":"crossref","first-page":"175","DOI":"10.1146\/annurev.cellbio.23.090506.123406","article-title":"microRNA functions","volume":"23","author":"Bushati","year":"2007","journal-title":"Annu. 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