{"id":"https://openalex.org/W2153710377","doi":"https://doi.org/10.1109/tbme.2014.2298559","title":"Modeling Biology With HDL Languages: A First Step Toward a Genetic Design Automation Tool Inspired From Microelectronics","display_name":"Modeling Biology With HDL Languages: A First Step Toward a Genetic Design Automation Tool Inspired From Microelectronics","publication_year":2014,"publication_date":"2014-01-31","ids":{"openalex":"https://openalex.org/W2153710377","doi":"https://doi.org/10.1109/tbme.2014.2298559","mag":"2153710377","pmid":"https://pubmed.ncbi.nlm.nih.gov/24658247"},"language":"en","primary_location":{"id":"doi:10.1109/tbme.2014.2298559","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tbme.2014.2298559","pdf_url":null,"source":{"id":"https://openalex.org/S5240358","display_name":"IEEE Transactions on Biomedical Engineering","issn_l":"0018-9294","issn":["0018-9294","1558-2531"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Biomedical Engineering","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5021308987","display_name":"Yves Gendrault","orcid":null},"institutions":[{"id":"https://openalex.org/I4210100283","display_name":"Laboratoire des Sciences de l'Ing\u00e9nieur, de l'Informatique et de l'Imagerie","ror":"https://ror.org/00k4e5n71","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I2801509770","https://openalex.org/I4210095849","https://openalex.org/I4210100283","https://openalex.org/I4210159245","https://openalex.org/I68947357"]},{"id":"https://openalex.org/I68947357","display_name":"Universit\u00e9 de Strasbourg","ror":"https://ror.org/00pg6eq24","country_code":"FR","type":"education","lineage":["https://openalex.org/I68947357"]}],"countries":["FR"],"is_corresponding":true,"raw_author_name":"Yves Gendrault","raw_affiliation_strings":["de l\u2019Informatique et de l\u2019Imagerie, Universit\u00e9 de Strasbourg and the Centre National de Recherches Scientifiques, Strasbourg, France"],"affiliations":[{"raw_affiliation_string":"de l\u2019Informatique et de l\u2019Imagerie, Universit\u00e9 de Strasbourg and the Centre National de Recherches Scientifiques, Strasbourg, France","institution_ids":["https://openalex.org/I4210100283","https://openalex.org/I68947357"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5106483571","display_name":"Morgan Madec","orcid":"https://orcid.org/0000-0001-9537-642X"},"institutions":[{"id":"https://openalex.org/I4210100283","display_name":"Laboratoire des Sciences de l'Ing\u00e9nieur, de l'Informatique et de l'Imagerie","ror":"https://ror.org/00k4e5n71","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I2801509770","https://openalex.org/I4210095849","https://openalex.org/I4210100283","https://openalex.org/I4210159245","https://openalex.org/I68947357"]},{"id":"https://openalex.org/I68947357","display_name":"Universit\u00e9 de Strasbourg","ror":"https://ror.org/00pg6eq24","country_code":"FR","type":"education","lineage":["https://openalex.org/I68947357"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Morgan Madec","raw_affiliation_strings":["de l\u2019Informatique et de l\u2019Imagerie, Universit\u00e9 de Strasbourg and the Centre National de Recherches Scientifiques, Strasbourg, France"],"affiliations":[{"raw_affiliation_string":"de l\u2019Informatique et de l\u2019Imagerie, Universit\u00e9 de Strasbourg and the Centre National de Recherches Scientifiques, Strasbourg, France","institution_ids":["https://openalex.org/I4210100283","https://openalex.org/I68947357"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055580961","display_name":"Christophe Lallement","orcid":"https://orcid.org/0000-0002-0708-7212"},"institutions":[{"id":"https://openalex.org/I68947357","display_name":"Universit\u00e9 de Strasbourg","ror":"https://ror.org/00pg6eq24","country_code":"FR","type":"education","lineage":["https://openalex.org/I68947357"]},{"id":"https://openalex.org/I4210100283","display_name":"Laboratoire des Sciences de l'Ing\u00e9nieur, de l'Informatique et de l'Imagerie","ror":"https://ror.org/00k4e5n71","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I1326498283","https://openalex.org/I2801509770","https://openalex.org/I4210095849","https://openalex.org/I4210100283","https://openalex.org/I4210159245","https://openalex.org/I68947357"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Christophe Lallement","raw_affiliation_strings":["de l\u2019Informatique et de l\u2019Imagerie, Universit\u00e9 de Strasbourg and the Centre National de Recherches Scientifiques, Strasbourg, France"],"affiliations":[{"raw_affiliation_string":"de l\u2019Informatique et de l\u2019Imagerie, Universit\u00e9 de Strasbourg and the Centre National de Recherches Scientifiques, Strasbourg, France","institution_ids":["https://openalex.org/I4210100283","https://openalex.org/I68947357"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5065266817","display_name":"Jacques Haiech","orcid":"https://orcid.org/0000-0003-2908-8053"},"institutions":[{"id":"https://openalex.org/I68947357","display_name":"Universit\u00e9 de Strasbourg","ror":"https://ror.org/00pg6eq24","country_code":"FR","type":"education","lineage":["https://openalex.org/I68947357"]},{"id":"https://openalex.org/I4210116974","display_name":"Laboratoire d'Innovation Th\u00e9rapeutique","ror":"https://ror.org/02g4mxc89","country_code":"FR","type":"facility","lineage":["https://openalex.org/I1294671590","https://openalex.org/I1294671590","https://openalex.org/I4210116974","https://openalex.org/I4210128300","https://openalex.org/I68947357"]}],"countries":["FR"],"is_corresponding":false,"raw_author_name":"Jacques Haiech","raw_affiliation_strings":["Laboratoire d\u2019Innovation Th\u00e9rapeutique, Universit\u00e9 de Strasbourg and the Centre National de Recherches Scientifiques, Strasbourg, France"],"affiliations":[{"raw_affiliation_string":"Laboratoire d\u2019Innovation Th\u00e9rapeutique, Universit\u00e9 de Strasbourg and the Centre National de Recherches Scientifiques, Strasbourg, France","institution_ids":["https://openalex.org/I4210116974","https://openalex.org/I68947357"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5021308987"],"corresponding_institution_ids":["https://openalex.org/I4210100283","https://openalex.org/I68947357"],"apc_list":null,"apc_paid":null,"fwci":1.9521,"has_fulltext":false,"cited_by_count":23,"citation_normalized_percentile":{"value":0.86415274,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"61","issue":"4","first_page":"1231","last_page":"1240"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9998000264167786,"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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9998000264167786,"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/T11975","display_name":"Evolutionary Algorithms and Applications","score":0.9842000007629395,"subfield":{"id":"https://openalex.org/subfields/1702","display_name":"Artificial Intelligence"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9822999835014343,"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/microelectronics","display_name":"Microelectronics","score":0.8082783222198486},{"id":"https://openalex.org/keywords/merge","display_name":"Merge (version control)","score":0.6073757410049438},{"id":"https://openalex.org/keywords/synthetic-biology","display_name":"Synthetic biology","score":0.5839345455169678},{"id":"https://openalex.org/keywords/automation","display_name":"Automation","score":0.5511363744735718},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5385950207710266},{"id":"https://openalex.org/keywords/systems-engineering","display_name":"Systems engineering","score":0.5040849447250366},{"id":"https://openalex.org/keywords/adaptation","display_name":"Adaptation (eye)","score":0.49078044295310974},{"id":"https://openalex.org/keywords/systems-biology","display_name":"Systems biology","score":0.41494840383529663},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.36344411969184875},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.3394280672073364},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2592792809009552},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.1477457582950592},{"id":"https://openalex.org/keywords/mechanical-engineering","display_name":"Mechanical engineering","score":0.14274784922599792},{"id":"https://openalex.org/keywords/electrical-engineering","display_name":"Electrical engineering","score":0.11059188842773438},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.10929948091506958}],"concepts":[{"id":"https://openalex.org/C187937830","wikidata":"https://www.wikidata.org/wiki/Q175403","display_name":"Microelectronics","level":2,"score":0.8082783222198486},{"id":"https://openalex.org/C197129107","wikidata":"https://www.wikidata.org/wiki/Q1921621","display_name":"Merge (version control)","level":2,"score":0.6073757410049438},{"id":"https://openalex.org/C191908910","wikidata":"https://www.wikidata.org/wiki/Q862838","display_name":"Synthetic biology","level":2,"score":0.5839345455169678},{"id":"https://openalex.org/C115901376","wikidata":"https://www.wikidata.org/wiki/Q184199","display_name":"Automation","level":2,"score":0.5511363744735718},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5385950207710266},{"id":"https://openalex.org/C201995342","wikidata":"https://www.wikidata.org/wiki/Q682496","display_name":"Systems engineering","level":1,"score":0.5040849447250366},{"id":"https://openalex.org/C139807058","wikidata":"https://www.wikidata.org/wiki/Q352374","display_name":"Adaptation (eye)","level":2,"score":0.49078044295310974},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.41494840383529663},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.36344411969184875},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.3394280672073364},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2592792809009552},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.1477457582950592},{"id":"https://openalex.org/C78519656","wikidata":"https://www.wikidata.org/wiki/Q101333","display_name":"Mechanical engineering","level":1,"score":0.14274784922599792},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.11059188842773438},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.10929948091506958},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D004581","descriptor_name":"Electronics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004581","descriptor_name":"Electronics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D004581","descriptor_name":"Electronics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008838","descriptor_name":"Microcomputers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008838","descriptor_name":"Microcomputers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008838","descriptor_name":"Microcomputers","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058615","descriptor_name":"Synthetic Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058615","descriptor_name":"Synthetic Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D058615","descriptor_name":"Synthetic Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1109/tbme.2014.2298559","is_oa":false,"landing_page_url":"https://doi.org/10.1109/tbme.2014.2298559","pdf_url":null,"source":{"id":"https://openalex.org/S5240358","display_name":"IEEE Transactions on Biomedical Engineering","issn_l":"0018-9294","issn":["0018-9294","1558-2531"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319808","host_organization_name":"Institute of Electrical and Electronics Engineers","host_organization_lineage":["https://openalex.org/P4310319808"],"host_organization_lineage_names":["Institute of Electrical and Electronics Engineers"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"IEEE Transactions on Biomedical Engineering","raw_type":"journal-article"},{"id":"pmid:24658247","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/24658247","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":"IEEE transactions on bio-medical engineering","raw_type":null},{"id":"pmh:oai:HAL:hal-05404696v1","is_oa":false,"landing_page_url":"https://hal.science/hal-05404696","pdf_url":null,"source":{"id":"https://openalex.org/S4406922466","display_name":"SPIRE - Sciences Po Institutional REpository","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"IEEE Transactions on Biomedical Engineering, 2014, 61 (4), pp.1231-1240. &#x27E8;10.1109/TBME.2014.2298559&#x27E9;","raw_type":"Journal articles"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":49,"referenced_works":["https://openalex.org/W574322001","https://openalex.org/W581518716","https://openalex.org/W1512457111","https://openalex.org/W1556762041","https://openalex.org/W1966131214","https://openalex.org/W1968698711","https://openalex.org/W1974553906","https://openalex.org/W1974616082","https://openalex.org/W1983914131","https://openalex.org/W1989543002","https://openalex.org/W1990214677","https://openalex.org/W1998721642","https://openalex.org/W2008110239","https://openalex.org/W2012358657","https://openalex.org/W2013234054","https://openalex.org/W2016959279","https://openalex.org/W2019954703","https://openalex.org/W2021099440","https://openalex.org/W2026867279","https://openalex.org/W2029370898","https://openalex.org/W2038264484","https://openalex.org/W2047882868","https://openalex.org/W2051266530","https://openalex.org/W2063616884","https://openalex.org/W2079549835","https://openalex.org/W2082398508","https://openalex.org/W2083456183","https://openalex.org/W2086976827","https://openalex.org/W2098390695","https://openalex.org/W2101506009","https://openalex.org/W2102653059","https://openalex.org/W2104520397","https://openalex.org/W2105662588","https://openalex.org/W2109906206","https://openalex.org/W2114942707","https://openalex.org/W2120435550","https://openalex.org/W2124977728","https://openalex.org/W2126362591","https://openalex.org/W2132828256","https://openalex.org/W2137758137","https://openalex.org/W2143337671","https://openalex.org/W2150908245","https://openalex.org/W2155092832","https://openalex.org/W2168142693","https://openalex.org/W2317498462","https://openalex.org/W2537194321","https://openalex.org/W4361834806","https://openalex.org/W6633457945","https://openalex.org/W6679016563"],"related_works":["https://openalex.org/W2057769265","https://openalex.org/W2024161258","https://openalex.org/W1911418903","https://openalex.org/W2338895903","https://openalex.org/W3044523069","https://openalex.org/W2136248167","https://openalex.org/W2126646394","https://openalex.org/W1987445442","https://openalex.org/W4211049090","https://openalex.org/W2211443823"],"abstract_inverted_index":{"Nowadays,":[0],"synthetic":[1,127,136],"biology":[2,137],"is":[3,162,194],"a":[4,159,177],"hot":[5],"research":[6],"topic.":[7],"Each":[8],"day,":[9],"progresses":[10],"are":[11,35,145],"made":[12,185],"to":[13,23,25,31,46,126,173],"improve":[14],"the":[15,54,79,90,93,100,117,120,130,135,140,151,169,203],"complexity":[16],"of":[17,92,102,122,142,153,168,179],"artificial":[18],"biological":[19,154,181],"functions":[20],"in":[21,69,82,88,113,190],"order":[22],"tend":[24],"complex":[26,72],"biodevices":[27],"and":[28,44,66,85,105,132,138],"biosystems.":[29],"Up":[30],"now,":[32],"these":[33],"systems":[34,73,83],"handmade":[36],"by":[37,98],"bioengineers,":[38],"which":[39],"require":[40],"strong":[41],"technical":[42],"skills":[43],"leads":[45],"nonreusable":[47],"development.":[48],"Besides,":[49],"scientific":[50],"fields":[51],"that":[52],"share":[53],"same":[55],"design":[56,107,124],"approach,":[57],"such":[58],"as":[59],"microelectronics,":[60,89,139],"have":[61],"already":[62],"overcome":[63],"several":[64],"issues":[65],"designers":[67],"succeed":[68],"building":[70],"extremely":[71],"with":[74,186],"many":[75],"evolved":[76],"functions.":[77],"On":[78],"other":[80],"hand,":[81],"engineering":[84],"more":[86],"specifically":[87],"development":[91],"domain":[94],"has":[95],"been":[96],"promoted":[97],"both":[99],"improvement":[101],"technological":[103],"processes":[104],"electronic":[106],"automation":[108],"tools.":[109],"The":[110,147],"work":[111],"presented":[112],"this":[114,143],"paper":[115],"paves":[116],"way":[118],"for":[119],"adaptation":[121,144],"microelectronics":[123],"tools":[125],"biology.":[128,174],"Considering":[129],"similarities":[131],"differences":[133],"between":[134],"milestones":[141],"described.":[146],"first":[148],"one":[149],"concerns":[150],"modeling":[152],"mechanisms.":[155],"To":[156],"do":[157],"so,":[158],"new":[160],"formalism":[161],"proposed,":[163],"based":[164],"on":[165,198],"an":[166],"extension":[167],"generalized":[170],"Kirchhoff":[171],"laws":[172],"This":[175],"way,":[176],"description":[178],"all":[180],"mechanisms":[182],"can":[183],"be":[184],"languages":[187],"widely":[188],"used":[189],"microelectronics.":[191],"Our":[192],"approach":[193],"therefore":[195],"successfully":[196],"validated":[197],"specific":[199],"examples":[200],"drawn":[201],"from":[202],"literature.":[204]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":4},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":4},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":5},{"year":2014,"cited_by_count":3}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
