{"id":"https://openalex.org/W2150985916","doi":"https://doi.org/10.1145/2642937.2643007","title":"Automated requirements analysis for a molecular watchdog timer","display_name":"Automated requirements analysis for a molecular watchdog timer","publication_year":2014,"publication_date":"2014-09-15","ids":{"openalex":"https://openalex.org/W2150985916","doi":"https://doi.org/10.1145/2642937.2643007","mag":"2150985916"},"language":"en","primary_location":{"id":"doi:10.1145/2642937.2643007","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2642937.2643007","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 29th ACM/IEEE International Conference on Automated Software Engineering","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"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/A5084617443","display_name":"Samuel Ellis","orcid":"https://orcid.org/0000-0002-5012-4277"},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Samuel J. Ellis","raw_affiliation_strings":["Iowa State University, Ames, IA, USA"],"affiliations":[{"raw_affiliation_string":"Iowa State University, Ames, IA, USA","institution_ids":["https://openalex.org/I173911158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102797459","display_name":"Eric Henderson","orcid":"https://orcid.org/0000-0002-5772-6246"},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Eric R. Henderson","raw_affiliation_strings":["Iowa State University, Ames, IA, USA"],"affiliations":[{"raw_affiliation_string":"Iowa State University, Ames, IA, USA","institution_ids":["https://openalex.org/I173911158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5043303629","display_name":"Titus H. Klinge","orcid":"https://orcid.org/0000-0002-2297-6712"},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Titus H. Klinge","raw_affiliation_strings":["Iowa State University, Ames, IA, USA"],"affiliations":[{"raw_affiliation_string":"Iowa State University, Ames, IA, USA","institution_ids":["https://openalex.org/I173911158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001352332","display_name":"James I. Lathrop","orcid":"https://orcid.org/0000-0002-5467-5818"},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"James I. Lathrop","raw_affiliation_strings":["Iowa State University, Ames, IA, USA"],"affiliations":[{"raw_affiliation_string":"Iowa State University, Ames, IA, USA","institution_ids":["https://openalex.org/I173911158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064796448","display_name":"Jack H. Lutz","orcid":"https://orcid.org/0000-0003-1004-3891"},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jack H. Lutz","raw_affiliation_strings":["Iowa State University, Ames, IA, USA"],"affiliations":[{"raw_affiliation_string":"Iowa State University, Ames, IA, USA","institution_ids":["https://openalex.org/I173911158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013390075","display_name":"Robyn R. Lutz","orcid":"https://orcid.org/0000-0001-5390-7982"},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Robyn R. Lutz","raw_affiliation_strings":["Iowa State University, Ames, IA, USA"],"affiliations":[{"raw_affiliation_string":"Iowa State University, Ames, IA, USA","institution_ids":["https://openalex.org/I173911158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073477299","display_name":"Divita Mathur","orcid":"https://orcid.org/0000-0002-3537-7292"},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Divita Mathur","raw_affiliation_strings":["Iowa State University, Ames, IA, USA"],"affiliations":[{"raw_affiliation_string":"Iowa State University, Ames, IA, USA","institution_ids":["https://openalex.org/I173911158"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5037662686","display_name":"Andrew S. Miner","orcid":"https://orcid.org/0000-0002-7737-6888"},"institutions":[{"id":"https://openalex.org/I173911158","display_name":"Iowa State University","ror":"https://ror.org/04rswrd78","country_code":"US","type":"education","lineage":["https://openalex.org/I173911158"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrew S. Miner","raw_affiliation_strings":["Iowa State University, Ames, IA, USA"],"affiliations":[{"raw_affiliation_string":"Iowa State University, Ames, IA, USA","institution_ids":["https://openalex.org/I173911158"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5084617443"],"corresponding_institution_ids":["https://openalex.org/I173911158"],"apc_list":null,"apc_paid":null,"fwci":1.426,"has_fulltext":false,"cited_by_count":16,"citation_normalized_percentile":{"value":0.81571388,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":null,"issue":null,"first_page":"767","last_page":"778"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10207","display_name":"Advanced biosensing and bioanalysis techniques","score":0.9998999834060669,"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/T10207","display_name":"Advanced biosensing and bioanalysis techniques","score":0.9998999834060669,"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/T10913","display_name":"Molecular Junctions and Nanostructures","score":0.9948999881744385,"subfield":{"id":"https://openalex.org/subfields/2208","display_name":"Electrical and Electronic Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.9930999875068665,"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/timer","display_name":"Timer","score":0.8666219711303711},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6601235866546631},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.5971463918685913},{"id":"https://openalex.org/keywords/abstraction","display_name":"Abstraction","score":0.5403321981430054},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5082418322563171},{"id":"https://openalex.org/keywords/embedded-system","display_name":"Embedded system","score":0.3347929120063782},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.12834671139717102}],"concepts":[{"id":"https://openalex.org/C2776633867","wikidata":"https://www.wikidata.org/wiki/Q186612","display_name":"Timer","level":3,"score":0.8666219711303711},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6601235866546631},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.5971463918685913},{"id":"https://openalex.org/C124304363","wikidata":"https://www.wikidata.org/wiki/Q673661","display_name":"Abstraction","level":2,"score":0.5403321981430054},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5082418322563171},{"id":"https://openalex.org/C149635348","wikidata":"https://www.wikidata.org/wiki/Q193040","display_name":"Embedded system","level":1,"score":0.3347929120063782},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.12834671139717102},{"id":"https://openalex.org/C173018170","wikidata":"https://www.wikidata.org/wiki/Q165678","display_name":"Microcontroller","level":2,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","level":1,"score":0.0},{"id":"https://openalex.org/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1145/2642937.2643007","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2642937.2643007","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 29th ACM/IEEE International Conference on Automated Software Engineering","raw_type":"proceedings-article"},{"id":"pmh:oai:lib.dr.iastate.edu:gdcb_las_conf-1016","is_oa":false,"landing_page_url":"https://lib.dr.iastate.edu/gdcb_las_conf/16","pdf_url":null,"source":{"id":"https://openalex.org/S4377196104","display_name":"Iowa State University Digital Repository (Iowa State University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I173911158","host_organization_name":"Iowa State University","host_organization_lineage":["https://openalex.org/I173911158"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Genetics, Development and Cell Biology Presentations, Posters and Proceedings","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.693.5170","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.693.5170","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.cs.iastate.edu/%7Elutz/%3DPAPERS/aramwt.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.708.5868","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.708.5868","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.titusklinge.com/assets/papers/arafamwt14.pdf","raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.721.1733","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.721.1733","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.gdcb.iastate.edu/wp-content/uploads/Mathur-ACE-paper.pdf","raw_type":"text"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G5237333017","display_name":null,"funder_award_id":"1247051","funder_id":"https://openalex.org/F4320306076","funder_display_name":"National Science Foundation"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320309398","display_name":"California Institute of Technology","ror":"https://ror.org/05dxps055"},{"id":"https://openalex.org/F4320320273","display_name":"University of Cambridge","ror":"https://ror.org/013meh722"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":60,"referenced_works":["https://openalex.org/W84637560","https://openalex.org/W172803389","https://openalex.org/W227597898","https://openalex.org/W1603773847","https://openalex.org/W1850048324","https://openalex.org/W1862398452","https://openalex.org/W1972276999","https://openalex.org/W1976815031","https://openalex.org/W1986292487","https://openalex.org/W1990476699","https://openalex.org/W1992710424","https://openalex.org/W1993933078","https://openalex.org/W2000804241","https://openalex.org/W2001429914","https://openalex.org/W2005615084","https://openalex.org/W2008591003","https://openalex.org/W2027995896","https://openalex.org/W2038125628","https://openalex.org/W2041226400","https://openalex.org/W2043312149","https://openalex.org/W2047996269","https://openalex.org/W2056134008","https://openalex.org/W2062802768","https://openalex.org/W2069431083","https://openalex.org/W2072895616","https://openalex.org/W2084408879","https://openalex.org/W2084815973","https://openalex.org/W2104146049","https://openalex.org/W2104525378","https://openalex.org/W2111765806","https://openalex.org/W2115179079","https://openalex.org/W2117818414","https://openalex.org/W2120158030","https://openalex.org/W2121061285","https://openalex.org/W2126961173","https://openalex.org/W2129289644","https://openalex.org/W2131328552","https://openalex.org/W2133035852","https://openalex.org/W2134929758","https://openalex.org/W2135648313","https://openalex.org/W2138153242","https://openalex.org/W2140372466","https://openalex.org/W2141478443","https://openalex.org/W2141881497","https://openalex.org/W2142364125","https://openalex.org/W2145609304","https://openalex.org/W2148895036","https://openalex.org/W2153965331","https://openalex.org/W2155418451","https://openalex.org/W2158346543","https://openalex.org/W2168342181","https://openalex.org/W2169033535","https://openalex.org/W2172755394","https://openalex.org/W2202738889","https://openalex.org/W2222782578","https://openalex.org/W2608217951","https://openalex.org/W2652867808","https://openalex.org/W2962683004","https://openalex.org/W6608892295","https://openalex.org/W6677065307"],"related_works":["https://openalex.org/W2360439717","https://openalex.org/W2388292776","https://openalex.org/W2765214557","https://openalex.org/W2361181213","https://openalex.org/W1031622928","https://openalex.org/W2350005463","https://openalex.org/W2347554032","https://openalex.org/W4293162581","https://openalex.org/W1459934432","https://openalex.org/W4313647964"],"abstract_inverted_index":{"Dynamic":[0],"systems":[1],"in":[2],"DNA":[3],"nanotechnology":[4],"are":[5,91,115],"often":[6],"programmed":[7],"using":[8],"a":[9,28,32,35,44,82,86],"chemical":[10],"reaction":[11],"network":[12],"(CRN)":[13],"model":[14,30,111,136],"as":[15],"an":[16,79],"intermediate":[17],"level":[18],"of":[19,31,43,76],"abstraction.":[20],"In":[21],"this":[22,122],"paper,":[23],"we":[24],"design":[25,52,128],"and":[26,61,85,94,96,113,127,132],"analyze":[27],"CRN":[29],"watchdog":[33,72,104],"timer,":[34],"device":[36],"commonly":[37],"used":[38,116],"to":[39,64,100,117],"monitor":[40],"the":[41,67,102,107,119,133],"health":[42],"safety":[45],"critical":[46],"system.":[47,120],"Our":[48],"process":[49],"uses":[50],"incremental":[51],"practices":[53],"with":[54],"goal-oriented":[55],"requirements":[56,126],"engineering,":[57],"software":[58,63,68],"verification":[59],"tools,":[60],"custom":[62],"help":[65],"automate":[66],"engineering":[69],"process.":[70],"The":[71],"timer":[73],"is":[74],"comprised":[75],"three":[77],"components:":[78],"absence":[80],"detector,":[81],"threshold":[83],"filter,":[84],"signal":[87],"amplifier.":[88],"These":[89],"components":[90],"separately":[92],"designed":[93],"verified,":[95],"only":[97],"then":[98],"composed":[99],"create":[101],"molecular":[103],"timer.":[105],"During":[106],"requirements-design":[108],"iterations,":[109],"simulation,":[110],"checking,":[112],"analysis":[114],"verify":[118],"Using":[121],"methodology":[123],"several":[124],"incomplete":[125],"flaws":[129],"were":[130],"found,":[131],"final":[134],"verified":[135],"helped":[137],"determine":[138],"specific":[139],"parameters":[140],"for":[141],"biological":[142],"experiments.":[143]},"counts_by_year":[{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":3},{"year":2016,"cited_by_count":4},{"year":2015,"cited_by_count":3}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
