{"id":"https://openalex.org/W2170211552","doi":"https://doi.org/10.1093/bioinformatics/btt742","title":"D-Tailor: automated analysis and design of DNA sequences","display_name":"D-Tailor: automated analysis and design of DNA sequences","publication_year":2014,"publication_date":"2014-01-06","ids":{"openalex":"https://openalex.org/W2170211552","doi":"https://doi.org/10.1093/bioinformatics/btt742","mag":"2170211552","pmid":"https://pubmed.ncbi.nlm.nih.gov/24398007"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btt742","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt742","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/8/1087/48922246/bioinformatics_30_8_1087.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/30/8/1087/48922246/bioinformatics_30_8_1087.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5034762663","display_name":"Joao C. Guimaraes","orcid":"https://orcid.org/0000-0002-1664-472X"},"institutions":[{"id":"https://openalex.org/I103922791","display_name":"QB3","ror":"https://ror.org/04n1n3n22","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I103922791","https://openalex.org/I180670191","https://openalex.org/I185103710","https://openalex.org/I95457486"]},{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]},{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]},{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT","US"],"is_corresponding":false,"raw_author_name":"Joao C. Guimaraes","raw_affiliation_strings":["1 Department of Bioengineering, 2California Institute for Quantitative Biosciences, University of California, Berkeley, CA, 94720, USA, 3Computer Science and Technology Center, School of Engineering, University of Minho, Campus de Gualtar, Braga, Portugal and 4Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioengineering, 2California Institute for Quantitative Biosciences, University of California, Berkeley, CA, 94720, USA, 3Computer Science and Technology Center, School of Engineering, University of Minho, Campus de Gualtar, Braga, Portugal and 4Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA","institution_ids":["https://openalex.org/I103922791","https://openalex.org/I148283060","https://openalex.org/I95457486","https://openalex.org/I99682543"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040524717","display_name":"Miguel Rocha","orcid":"https://orcid.org/0000-0001-8439-8172"},"institutions":[{"id":"https://openalex.org/I103922791","display_name":"QB3","ror":"https://ror.org/04n1n3n22","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I103922791","https://openalex.org/I180670191","https://openalex.org/I185103710","https://openalex.org/I95457486"]},{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]},{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]},{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT","US"],"is_corresponding":false,"raw_author_name":"Miguel Rocha","raw_affiliation_strings":["1 Department of Bioengineering, 2California Institute for Quantitative Biosciences, University of California, Berkeley, CA, 94720, USA, 3Computer Science and Technology Center, School of Engineering, University of Minho, Campus de Gualtar, Braga, Portugal and 4Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioengineering, 2California Institute for Quantitative Biosciences, University of California, Berkeley, CA, 94720, USA, 3Computer Science and Technology Center, School of Engineering, University of Minho, Campus de Gualtar, Braga, Portugal and 4Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA","institution_ids":["https://openalex.org/I103922791","https://openalex.org/I148283060","https://openalex.org/I95457486","https://openalex.org/I99682543"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066623854","display_name":"Adam P. Arkin","orcid":"https://orcid.org/0000-0002-4999-2931"},"institutions":[{"id":"https://openalex.org/I103922791","display_name":"QB3","ror":"https://ror.org/04n1n3n22","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I103922791","https://openalex.org/I180670191","https://openalex.org/I185103710","https://openalex.org/I95457486"]},{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]},{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]},{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT","US"],"is_corresponding":true,"raw_author_name":"Adam P. Arkin","raw_affiliation_strings":["1 Department of Bioengineering, 2California Institute for Quantitative Biosciences, University of California, Berkeley, CA, 94720, USA, 3Computer Science and Technology Center, School of Engineering, University of Minho, Campus de Gualtar, Braga, Portugal and 4Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioengineering, 2California Institute for Quantitative Biosciences, University of California, Berkeley, CA, 94720, USA, 3Computer Science and Technology Center, School of Engineering, University of Minho, Campus de Gualtar, Braga, Portugal and 4Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA","institution_ids":["https://openalex.org/I103922791","https://openalex.org/I148283060","https://openalex.org/I95457486","https://openalex.org/I99682543"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5029579606","display_name":"Guillaume Cambray","orcid":"https://orcid.org/0000-0003-0087-2469"},"institutions":[{"id":"https://openalex.org/I103922791","display_name":"QB3","ror":"https://ror.org/04n1n3n22","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I103922791","https://openalex.org/I180670191","https://openalex.org/I185103710","https://openalex.org/I95457486"]},{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]},{"id":"https://openalex.org/I95457486","display_name":"University of California, Berkeley","ror":"https://ror.org/01an7q238","country_code":"US","type":"education","lineage":["https://openalex.org/I95457486"]},{"id":"https://openalex.org/I99682543","display_name":"University of Minho","ror":"https://ror.org/037wpkx04","country_code":"PT","type":"education","lineage":["https://openalex.org/I99682543"]}],"countries":["PT","US"],"is_corresponding":true,"raw_author_name":"Guillaume Cambray","raw_affiliation_strings":["1 Department of Bioengineering, 2California Institute for Quantitative Biosciences, University of California, Berkeley, CA, 94720, USA, 3Computer Science and Technology Center, School of Engineering, University of Minho, Campus de Gualtar, Braga, Portugal and 4Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bioengineering, 2California Institute for Quantitative Biosciences, University of California, Berkeley, CA, 94720, USA, 3Computer Science and Technology Center, School of Engineering, University of Minho, Campus de Gualtar, Braga, Portugal and 4Physical Biosciences Division, Lawrence Berkeley National Laboratory, Berkeley, CA, 94720, USA","institution_ids":["https://openalex.org/I103922791","https://openalex.org/I148283060","https://openalex.org/I95457486","https://openalex.org/I99682543"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5029579606","https://openalex.org/A5066623854"],"corresponding_institution_ids":["https://openalex.org/I103922791","https://openalex.org/I148283060","https://openalex.org/I95457486","https://openalex.org/I99682543"],"apc_list":{"value":3989,"currency":"USD","value_usd":3989},"apc_paid":{"value":3989,"currency":"USD","value_usd":3989},"fwci":1.0485,"has_fulltext":true,"cited_by_count":38,"citation_normalized_percentile":{"value":0.76206155,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"30","issue":"8","first_page":"1087","last_page":"1094"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.589900016784668,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.589900016784668,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.26750001311302185,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.029200000688433647,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6636219024658203},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.5588727593421936},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.5569820404052734},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5497883558273315},{"id":"https://openalex.org/keywords/cloning","display_name":"Cloning (programming)","score":0.5448652505874634},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.4911160171031952},{"id":"https://openalex.org/keywords/limiting","display_name":"Limiting","score":0.4689708948135376},{"id":"https://openalex.org/keywords/synthetic-biology","display_name":"Synthetic biology","score":0.4642295241355896},{"id":"https://openalex.org/keywords/code","display_name":"Code (set theory)","score":0.429464191198349},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.35490453243255615},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.3424381613731384},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3343968987464905},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.32551807165145874},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.3064994812011719},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.28371763229370117},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.17813175916671753},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.16675513982772827},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.14143824577331543},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.11691904067993164}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6636219024658203},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.5588727593421936},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.5569820404052734},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5497883558273315},{"id":"https://openalex.org/C121050878","wikidata":"https://www.wikidata.org/wiki/Q5135020","display_name":"Cloning (programming)","level":2,"score":0.5448652505874634},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.4911160171031952},{"id":"https://openalex.org/C188198153","wikidata":"https://www.wikidata.org/wiki/Q1613840","display_name":"Limiting","level":2,"score":0.4689708948135376},{"id":"https://openalex.org/C191908910","wikidata":"https://www.wikidata.org/wiki/Q862838","display_name":"Synthetic biology","level":2,"score":0.4642295241355896},{"id":"https://openalex.org/C2776760102","wikidata":"https://www.wikidata.org/wiki/Q5139990","display_name":"Code (set theory)","level":3,"score":0.429464191198349},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.35490453243255615},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.3424381613731384},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3343968987464905},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.32551807165145874},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.3064994812011719},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.28371763229370117},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.17813175916671753},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.16675513982772827},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.14143824577331543},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.11691904067993164},{"id":"https://openalex.org/C78519656","wikidata":"https://www.wikidata.org/wiki/Q101333","display_name":"Mechanical engineering","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D009010","descriptor_name":"Monte Carlo Method","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009010","descriptor_name":"Monte Carlo Method","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009010","descriptor_name":"Monte Carlo Method","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":10,"locations":[{"id":"doi:10.1093/bioinformatics/btt742","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt742","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/8/1087/48922246/bioinformatics_30_8_1087.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:24398007","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24398007","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics (Oxford, England)","raw_type":"Journal Article"},{"id":"pmh:oai:HAL:hal-02950423v1","is_oa":true,"landing_page_url":"https://hal.inrae.fr/hal-02950423","pdf_url":"https://hal.inrae.fr/hal-02950423v1/document","source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 2014, 30 (8), pp.1087-1094. &#x27E8;10.1093/bioinformatics/btt742&#x27E9;","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:europepmc.org:2995978","is_oa":false,"landing_page_url":"http://europepmc.org/articles/PMC3982154","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:3982154","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3982154","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:ark:/13030/qt7gx3j82z","is_oa":false,"landing_page_url":null,"pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:HAL:hal-01873083v1","is_oa":true,"landing_page_url":"https://hal.science/hal-01873083","pdf_url":null,"source":{"id":"https://openalex.org/S4306402512","display_name":"HAL (Le Centre pour la Communication Scientifique Directe)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1294671590","host_organization_name":"Centre National de la Recherche Scientifique","host_organization_lineage":["https://openalex.org/I1294671590"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, 2014, 30 (8), pp.1087-1094. &#x27E8;10.1093/bioinformatics/btt742&#x27E9;","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:escholarship.org/ark:/13030/qt7gx3j82z","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/7gx3j82z","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics (Oxford, England), vol 30, iss 8","raw_type":"article"},{"id":"pmh:oai:osti.gov:1625285","is_oa":true,"landing_page_url":"https://www.osti.gov/biblio/1625285","pdf_url":null,"source":{"id":"https://openalex.org/S4306402487","display_name":"OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I139351228","host_organization_name":"Office of Scientific and Technical Information","host_organization_lineage":["https://openalex.org/I139351228"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":null},{"id":"pmh:oai:prodinra.inra.fr:369944","is_oa":true,"landing_page_url":"http://prodinra.inra.fr/ft/21E180A3-C3E7-4FFE-83BF-2E019640B8C5","pdf_url":null,"source":{"id":"https://openalex.org/S4306400794","display_name":"Prodinra (INRA Bordeaux-Aquitaine)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210088668","host_organization_name":"Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement","host_organization_lineage":["https://openalex.org/I4210088668"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics 8 (30), 1087-1094. (2014)","raw_type":"ARTICLE"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btt742","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt742","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/8/1087/48922246/bioinformatics_30_8_1087.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1167214205","display_name":null,"funder_award_id":"COMPETE","funder_id":"https://openalex.org/F4320335322","funder_display_name":"European Regional Development Fund"},{"id":"https://openalex.org/G1578237752","display_name":null,"funder_award_id":"COMPETE","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G8751495155","display_name":"Synthetic Biology Engineering Research Center (SynBERC)","funder_award_id":"0540879","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"},{"id":"https://openalex.org/G8868700560","display_name":null,"funder_award_id":"FCOMP-01-0124-FEDER","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320324477","display_name":"Fondation Bettencourt Schueller","ror":"https://ror.org/02p3abx23"},{"id":"https://openalex.org/F4320334779","display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia","ror":"https://ror.org/00snfqn58"},{"id":"https://openalex.org/F4320335322","display_name":"European Regional Development Fund","ror":"https://ror.org/00k4n6c32"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2170211552.pdf","grobid_xml":"https://content.openalex.org/works/W2170211552.grobid-xml"},"referenced_works_count":61,"referenced_works":["https://openalex.org/W622321019","https://openalex.org/W1498210985","https://openalex.org/W1964479370","https://openalex.org/W1964928696","https://openalex.org/W1969395440","https://openalex.org/W1970422609","https://openalex.org/W1980279189","https://openalex.org/W1984248485","https://openalex.org/W1989004527","https://openalex.org/W1996554707","https://openalex.org/W2000137108","https://openalex.org/W2000219748","https://openalex.org/W2008047506","https://openalex.org/W2018590530","https://openalex.org/W2018645639","https://openalex.org/W2024060531","https://openalex.org/W2028367976","https://openalex.org/W2032265205","https://openalex.org/W2039707307","https://openalex.org/W2045295945","https://openalex.org/W2047360542","https://openalex.org/W2047882868","https://openalex.org/W2051242197","https://openalex.org/W2063779182","https://openalex.org/W2066829062","https://openalex.org/W2068034454","https://openalex.org/W2070997378","https://openalex.org/W2072499238","https://openalex.org/W2074565201","https://openalex.org/W2076709958","https://openalex.org/W2078755055","https://openalex.org/W2080233018","https://openalex.org/W2082317854","https://openalex.org/W2088631531","https://openalex.org/W2090971845","https://openalex.org/W2103250001","https://openalex.org/W2105557836","https://openalex.org/W2109036608","https://openalex.org/W2109295007","https://openalex.org/W2115749923","https://openalex.org/W2131946590","https://openalex.org/W2132224717","https://openalex.org/W2145301070","https://openalex.org/W2145674897","https://openalex.org/W2146958608","https://openalex.org/W2150237478","https://openalex.org/W2151102421","https://openalex.org/W2157009395","https://openalex.org/W2158714788","https://openalex.org/W2159230317","https://openalex.org/W2159933659","https://openalex.org/W2161645441","https://openalex.org/W2164618276","https://openalex.org/W2165182519","https://openalex.org/W2395549144","https://openalex.org/W2400250419","https://openalex.org/W2915607458","https://openalex.org/W4211152707","https://openalex.org/W4300570015","https://openalex.org/W6675594791","https://openalex.org/W6684041852"],"related_works":["https://openalex.org/W3141738981","https://openalex.org/W2099102792","https://openalex.org/W4254255930","https://openalex.org/W2009687716","https://openalex.org/W634364059","https://openalex.org/W4377564965","https://openalex.org/W4205129443","https://openalex.org/W2555186193","https://openalex.org/W2153914641","https://openalex.org/W1974281125"],"abstract_inverted_index":{"MOTIVATION:":[0],"Current":[1],"advances":[2],"in":[3,104],"DNA":[4,50],"synthesis,":[5],"cloning":[6],"and":[7],"sequencing":[8],"technologies":[9],"afford":[10],"high-throughput":[11],"implementation":[12,123],"of":[13,32,48,57,74,80,88,124],"artificial":[14,111],"sequences":[15,70,112],"into":[16,62],"living":[17],"cells.":[18],"However,":[19],"flexible":[20],"computational":[21],"tools":[22,61],"for":[23,45,134],"multi-objective":[24],"sequence":[25,59,90,99],"design":[26,47,110],"are":[27,146],"lacking,":[28],"limiting":[29],"the":[30,54,122],"potential":[31],"these":[33],"technologies.":[34],"RESULTS:":[35],"We":[36],"developed":[37],"DNA-Tailor":[38],"(D-Tailor),":[39],"a":[40,63],"fully":[41],"extendable":[42],"software":[43],"framework,":[44],"property-based":[46],"synthetic":[49],"sequences.":[51],"D-Tailor":[52,85],"permits":[53],"seamless":[55],"integration":[56],"multiple":[58],"analysis":[60],"generic":[64],"Monte":[65],"Carlo":[66],"simulation":[67],"that":[68,84,113],"evolves":[69],"toward":[71],"any":[72,116],"combination":[73],"rationally":[75],"defined":[76],"properties.":[77],"As":[78],"proof":[79],"principle,":[81],"we":[82],"show":[83],"is":[86,132],"capable":[87],"designing":[89],"libraries":[91],"comprising":[92],"all":[93],"possible":[94],"combinations":[95],"among":[96],"three":[97],"different":[98],"properties":[100],"influencing":[101],"translation":[102],"efficiency":[103],"Escherichia":[105],"coli":[106],"The":[107],"capacity":[108],"to":[109],"systematically":[114],"sample":[115],"given":[117],"parameter":[118],"space":[119],"should":[120],"support":[121],"more":[125],"rigorous":[126],"experimental":[127],"designs.":[128],"AVAILABILITY:":[129],"Source":[130],"code":[131],"available":[133,147],"download":[135],"at":[136,148],"https://sourceforge.net/projects/dtailor/":[137],"CONTACT:":[138],"aparkin@lbl.gov":[139],"or":[140],"cambray.guillaume@gmail.com":[141],"Supplementary":[142,144],"information:":[143],"data":[145],"Bioinformatics":[149],"online":[150],"(D-Tailor":[151],"Tutorial).":[152]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2024,"cited_by_count":4},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":6},{"year":2020,"cited_by_count":3},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":4},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":1}],"updated_date":"2026-08-27T14:10:00.468798","created_date":"2025-10-10T00:00:00"}
