{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,16]],"date-time":"2026-03-16T05:34:25Z","timestamp":1773639265873,"version":"3.50.1"},"reference-count":13,"publisher":"Oxford University Press (OUP)","issue":"22","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2013,11,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: Transcription activator-like effector nucleases (TALENs) have become an accepted tool for targeted mutagenesis, but undesired off-targets remain an important issue. We present TALENoffer, a novel tool for the genome-wide prediction of TALEN off-targets. We show that TALENoffer successfully predicts known off-targets of engineered TALENs and yields a competitive runtime, scanning complete mammalian genomes within a few minutes.<\/jats:p>\n               <jats:p>Availability: TALENoffer is available as a command line program from http:\/\/www.jstacs.de\/index.php\/TALENoffer and as a Galaxy server at http:\/\/galaxy.informatik.uni-halle.de.<\/jats:p>\n               <jats:p>Contact: \u00a0grau@informatik.uni-halle.de<\/jats:p>\n               <jats:p>Supplementary Information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btt501","type":"journal-article","created":{"date-parts":[[2013,8,31]],"date-time":"2013-08-31T02:09:12Z","timestamp":1377914952000},"page":"2931-2932","source":"Crossref","is-referenced-by-count":83,"title":["TALENoffer: genome-wide TALEN off-target prediction"],"prefix":"10.1093","volume":"29","author":[{"given":"Jan","family":"Grau","sequence":"first","affiliation":[{"name":"1 Institute of Computer Science and 2Department of Genetics, Institute of Biology, Martin Luther University Halle\u2013Wittenberg, D-06099 Halle (Saale), Germany"}]},{"given":"Jens","family":"Boch","sequence":"additional","affiliation":[{"name":"1 Institute of Computer Science and 2Department of Genetics, Institute of Biology, Martin Luther University Halle\u2013Wittenberg, D-06099 Halle (Saale), Germany"}]},{"given":"Stefan","family":"Posch","sequence":"additional","affiliation":[{"name":"1 Institute of Computer Science and 2Department of Genetics, Institute of Biology, Martin Luther University Halle\u2013Wittenberg, D-06099 Halle (Saale), Germany"}]}],"member":"286","published-online":{"date-parts":[[2013,8,30]]},"reference":[{"key":"2023012810483176800_btt501-B1","doi-asserted-by":"crossref","first-page":"19.10.1","DOI":"10.1002\/0471142727.mb1910s89","article-title":"Galaxy: A Web-Based Genome Analysis Tool for Experimentalists","volume":"89","author":"Blankenberg","year":"2010","journal-title":"Curr. Protoc. Mol. Biol."},{"key":"2023012810483176800_btt501-B2","doi-asserted-by":"crossref","first-page":"1509","DOI":"10.1126\/science.1178811","article-title":"Breaking the code of DNA binding specificity of TAL-type III effectors","volume":"326","author":"Boch","year":"2009","journal-title":"Science"},{"key":"2023012810483176800_btt501-B3","doi-asserted-by":"crossref","first-page":"W117","DOI":"10.1093\/nar\/gks608","article-title":"TAL effector-nucleotide targeter (TALE-NT) 2.0: tools for TAL effector design and target prediction","volume":"40","author":"Doyle","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"2023012810483176800_btt501-B4","doi-asserted-by":"crossref","first-page":"397","DOI":"10.1016\/j.tibtech.2013.04.004","article-title":"ZFN, TALEN, and CRISPR\/Cas-based methods for genome engineering","volume":"31","author":"Gaj","year":"2013","journal-title":"Trends Biotechnol."},{"key":"2023012810483176800_btt501-B5","doi-asserted-by":"crossref","first-page":"e1002962","DOI":"10.1371\/journal.pcbi.1002962","article-title":"Computational predictions provide insights into the biology of TAL effector target sites","volume":"9","author":"Grau","year":"2013","journal-title":"PLoS Comput. Biol."},{"key":"2023012810483176800_btt501-B6","first-page":"1967","article-title":"Jstacs: a Java framework for statistical analysis and classification of biological sequences","volume":"13","author":"Grau","year":"2012","journal-title":"J. Mach. Learn. Res."},{"key":"2023012810483176800_btt501-B7","doi-asserted-by":"crossref","first-page":"731","DOI":"10.1038\/nbt.1927","article-title":"Genetic engineering of human pluripotent cells using TALE nucleases","volume":"29","author":"Hockemeyer","year":"2011","journal-title":"Nat. Biotechnol."},{"key":"2023012810483176800_btt501-B8","doi-asserted-by":"crossref","first-page":"143","DOI":"10.1038\/nbt.1755","article-title":"A TALE nuclease architecture for efficient genome editing","volume":"29","author":"Miller","year":"2011","journal-title":"Nat. Biotechnol."},{"key":"2023012810483176800_btt501-B9","doi-asserted-by":"crossref","first-page":"1501","DOI":"10.1126\/science.1178817","article-title":"A simple cipher governs DNA recognition by TAL effectors","volume":"326","author":"Moscou","year":"2009","journal-title":"Science"},{"key":"2023012810483176800_btt501-B10","doi-asserted-by":"crossref","first-page":"9283","DOI":"10.1093\/nar\/gkr597","article-title":"A novel TALE nuclease scaffold enables high genome editing activity in combination with low toxicity","volume":"39","author":"Mussolino","year":"2011","journal-title":"Nucleic Acids Res."},{"key":"2023012810483176800_btt501-B11","doi-asserted-by":"crossref","first-page":"1151","DOI":"10.1038\/mt.2013.56","article-title":"TALEN-based gene correction for epidermolysis bullosa","volume":"21","author":"Osborn","year":"2013","journal-title":"Mol. Ther."},{"key":"2023012810483176800_btt501-B12","doi-asserted-by":"crossref","first-page":"593","DOI":"10.1038\/nbt.2304","article-title":"TAL effector RVD specificities and efficiencies","volume":"30","author":"Streubel","year":"2012","journal-title":"Nat. Biotechnol."},{"key":"2023012810483176800_btt501-B13","doi-asserted-by":"crossref","first-page":"695","DOI":"10.1038\/nbt.1940","article-title":"Knockout rats generated by embryo microinjection of TALENs","volume":"29","author":"Tesson","year":"2011","journal-title":"Nat. Biotechnol."}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/29\/22\/2931\/48893812\/bioinformatics_29_22_2931.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/29\/22\/2931\/48893812\/bioinformatics_29_22_2931.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,28]],"date-time":"2023-01-28T12:48:14Z","timestamp":1674910094000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/29\/22\/2931\/315528"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2013,8,30]]},"references-count":13,"journal-issue":{"issue":"22","published-print":{"date-parts":[[2013,11,15]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btt501","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2013,11,15]]},"published":{"date-parts":[[2013,8,30]]}}}