{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,14]],"date-time":"2026-06-14T09:09:59Z","timestamp":1781428199620,"version":"3.54.1"},"reference-count":9,"publisher":"Oxford University Press (OUP)","issue":"16","license":[{"start":{"date-parts":[[2020,7,9]],"date-time":"2020-07-09T00:00:00Z","timestamp":1594252800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100000268","name":"Biotechnology and Biological Sciences Research Council","doi-asserted-by":"publisher","award":["BB\/M025659\/1"],"award-info":[{"award-number":["BB\/M025659\/1"]}],"id":[{"id":"10.13039\/501100000268","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000268","name":"Biotechnology and Biological Sciences Research Council","doi-asserted-by":"publisher","award":["BB\/M025640\/1"],"award-info":[{"award-number":["BB\/M025640\/1"]}],"id":[{"id":"10.13039\/501100000268","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000268","name":"Biotechnology and Biological Sciences Research Council","doi-asserted-by":"publisher","award":["BB\/M00029X\/1"],"award-info":[{"award-number":["BB\/M00029X\/1"]}],"id":[{"id":"10.13039\/501100000268","id-type":"DOI","asserted-by":"publisher"}]},{"name":"BBSRC\/MRC\/EPSRC funded UK Centre for Mammalian Synthetic Biology","award":["BB\/M0101804\/1"],"award-info":[{"award-number":["BB\/M0101804\/1"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,8,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>Accounting for biological and practical requirements in DNA sequence design often results in challenging optimization problems. Current software solutions are problem-specific and hard to combine.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>DNA Chisel is an easy-to-use, easy-to-extend sequence optimization framework allowing to freely define and combine optimization specifications via Python scripts or Genbank annotations.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>The framework is available as a web application (https:\/\/cuba.genomefoundry.org\/sculpt_a_sequence) or open-source Python library (see at https:\/\/github.com\/Edinburgh-Genome-Foundry\/DNAChisel for code and documentation).<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Supplementary information<\/jats:title>\n                    <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btaa558","type":"journal-article","created":{"date-parts":[[2020,7,1]],"date-time":"2020-07-01T15:11:27Z","timestamp":1593616287000},"page":"4508-4509","source":"Crossref","is-referenced-by-count":80,"title":["DNA Chisel, a versatile sequence optimizer"],"prefix":"10.1093","volume":"36","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-5627-4823","authenticated-orcid":false,"given":"Valentin","family":"Zulkower","sequence":"first","affiliation":[{"name":"Edinburgh Genome Foundry, SynthSys, School of Biological Sciences, University of Edinburgh , Edinburgh EH93BF, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Susan","family":"Rosser","sequence":"additional","affiliation":[{"name":"Edinburgh Genome Foundry, SynthSys, School of Biological Sciences, University of Edinburgh , Edinburgh EH93BF, UK"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2020,7,9]]},"reference":[{"key":"2023062213524514800_btaa558-B1","doi-asserted-by":"crossref","first-page":"525","DOI":"10.1021\/sb4001323","article-title":"R2oDNA designer: computational design of biologically neutral synthetic DNA sequences","volume":"3","author":"Casini","year":"2014","journal-title":"ACS Synth. 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