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New logistic and SVM-derived models enable in silico predictions of assay success, and assay redesign exhibits improved coverage uniformity relative to previous methods, which in turn improves the utility of MIPs for cost-effective targeted sequencing for candidate gene validation and for diagnostic sequencing in a clinical setting.<\/jats:p>\n               <jats:p>Availability and implementation: MIPgen is implemented in C++. Source code and accompanying Python scripts are available at http:\/\/shendurelab.github.io\/MIPGEN\/ .<\/jats:p>\n               <jats:p>Contact: \u00a0shendure@uw.edu or boylee@uw.edu<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btu353","type":"journal-article","created":{"date-parts":[[2014,5,28]],"date-time":"2014-05-28T00:15:16Z","timestamp":1401236116000},"page":"2670-2672","source":"Crossref","is-referenced-by-count":149,"title":["MIPgen: optimized modeling and design of molecular inversion probes for targeted resequencing"],"prefix":"10.1093","volume":"30","author":[{"given":"Evan A.","family":"Boyle","sequence":"first","affiliation":[{"name":"1 Department of Genome Sciences, University of Washington, Seattle, WA 98105 and 2 Department of Molecular & Medical Genetics, Oregon Health & Science University, Portland, OR 97239, USA"}]},{"given":"Brian J.","family":"O\u2019Roak","sequence":"additional","affiliation":[{"name":"1 Department of Genome Sciences, University of Washington, Seattle, WA 98105 and 2 Department of Molecular & Medical Genetics, Oregon Health & Science University, Portland, OR 97239, USA"}]},{"given":"Beth K.","family":"Martin","sequence":"additional","affiliation":[{"name":"1 Department of Genome Sciences, University of Washington, Seattle, WA 98105 and 2 Department of Molecular & Medical Genetics, Oregon Health & Science University, Portland, OR 97239, USA"}]},{"given":"Akash","family":"Kumar","sequence":"additional","affiliation":[{"name":"1 Department of Genome Sciences, University of Washington, Seattle, WA 98105 and 2 Department of Molecular & Medical Genetics, Oregon Health & Science University, Portland, OR 97239, USA"}]},{"given":"Jay","family":"Shendure","sequence":"additional","affiliation":[{"name":"1 Department of Genome Sciences, University of Washington, Seattle, WA 98105 and 2 Department of Molecular & Medical Genetics, Oregon Health & Science University, Portland, OR 97239, USA"}]}],"member":"286","published-online":{"date-parts":[[2014,5,26]]},"reference":[{"key":"2023012711554469000_btu353-B1","doi-asserted-by":"crossref","first-page":"R95","DOI":"10.1186\/gb-2011-12-9-r95","article-title":"Comprehensive comparison of three commercial human whole-exome capture platforms","volume":"12","author":"Asan","year":"2011","journal-title":"Genome Biol."},{"key":"2023012711554469000_btu353-B2","doi-asserted-by":"crossref","first-page":"353","DOI":"10.1038\/nbt.1530","article-title":"Targeted bisulfite sequencing reveals changes in DNA methylation associated with nuclear reprogramming","volume":"27","author":"Deng","year":"2009","journal-title":"Nat. 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