{"id":"https://openalex.org/W3043024808","doi":"https://doi.org/10.1007/978-3-030-53288-8_32","title":"SeQuaiA: A Scalable Tool for Semi-Quantitative Analysis of Chemical Reaction Networks","display_name":"SeQuaiA: A Scalable Tool for Semi-Quantitative Analysis of Chemical Reaction Networks","publication_year":2020,"publication_date":"2020-01-01","ids":{"openalex":"https://openalex.org/W3043024808","doi":"https://doi.org/10.1007/978-3-030-53288-8_32","mag":"3043024808"},"language":"en","primary_location":{"id":"doi:10.1007/978-3-030-53288-8_32","is_oa":true,"landing_page_url":"https://doi.org/10.1007/978-3-030-53288-8_32","pdf_url":"https://link.springer.com/content/pdf/10.1007%2F978-3-030-53288-8_32.pdf","source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"type":"book-chapter","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"hybrid","oa_url":"https://link.springer.com/content/pdf/10.1007%2F978-3-030-53288-8_32.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5001379903","display_name":"Milan \u010ce\u0161ka","orcid":"https://orcid.org/0000-0002-0300-9727"},"institutions":[{"id":"https://openalex.org/I60587646","display_name":"Brno University of Technology","ror":"https://ror.org/03613d656","country_code":"CZ","type":"education","lineage":["https://openalex.org/I60587646"]}],"countries":["CZ"],"is_corresponding":true,"raw_author_name":"Milan \u010ce\u0161ka","raw_affiliation_strings":["Brno University of Technology, Brno, Czech Republic"],"affiliations":[{"raw_affiliation_string":"Brno University of Technology, Brno, Czech Republic","institution_ids":["https://openalex.org/I60587646"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019435587","display_name":"Calvin Chau","orcid":"https://orcid.org/0000-0002-3437-0240"},"institutions":[{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Calvin Chau","raw_affiliation_strings":["Technical University of Munich, Munich, Germany"],"affiliations":[{"raw_affiliation_string":"Technical University of Munich, Munich, Germany","institution_ids":["https://openalex.org/I62916508"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5074485601","display_name":"Jan K\u0159et\u00ednsk\u00fd","orcid":"https://orcid.org/0000-0002-8122-2881"},"institutions":[{"id":"https://openalex.org/I62916508","display_name":"Technical University of Munich","ror":"https://ror.org/02kkvpp62","country_code":"DE","type":"education","lineage":["https://openalex.org/I62916508"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Jan K\u0159et\u00ednsk\u00fd","raw_affiliation_strings":["Technical University of Munich, Munich, Germany"],"affiliations":[{"raw_affiliation_string":"Technical University of Munich, Munich, Germany","institution_ids":["https://openalex.org/I62916508"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5001379903"],"corresponding_institution_ids":["https://openalex.org/I60587646"],"apc_list":{"value":5000,"currency":"EUR","value_usd":5392},"apc_paid":{"value":5000,"currency":"EUR","value_usd":5392},"fwci":0.7893,"has_fulltext":true,"cited_by_count":4,"citation_normalized_percentile":{"value":0.73261339,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":96},"biblio":{"volume":null,"issue":null,"first_page":"653","last_page":"666"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9993000030517578,"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":0.9993000030517578,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9954000115394592,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9876000285148621,"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":0.8497408628463745},{"id":"https://openalex.org/keywords/scalability","display_name":"Scalability","score":0.6458134651184082},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.18501701951026917}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8497408628463745},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.6458134651184082},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.18501701951026917}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1007/978-3-030-53288-8_32","is_oa":true,"landing_page_url":"https://doi.org/10.1007/978-3-030-53288-8_32","pdf_url":"https://link.springer.com/content/pdf/10.1007%2F978-3-030-53288-8_32.pdf","source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},{"id":"pmh:oai:pubmedcentral.nih.gov:7363201","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/7363201","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Computer Aided Verification","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1007/978-3-030-53288-8_32","is_oa":true,"landing_page_url":"https://doi.org/10.1007/978-3-030-53288-8_32","pdf_url":"https://link.springer.com/content/pdf/10.1007%2F978-3-030-53288-8_32.pdf","source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3161690021","display_name":null,"funder_award_id":"GJ20-02328Y","funder_id":"https://openalex.org/F4320321006","funder_display_name":"Grantov\u00e1 Agentura \u010cesk\u00e9 Republiky"},{"id":"https://openalex.org/G5329822564","display_name":null,"funder_award_id":"383882557","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G6052429835","display_name":null,"funder_award_id":"(DFG)","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G7825019086","display_name":null,"funder_award_id":"project 3","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"}],"funders":[{"id":"https://openalex.org/F4320320879","display_name":"Deutsche Forschungsgemeinschaft","ror":"https://ror.org/018mejw64"},{"id":"https://openalex.org/F4320321006","display_name":"Grantov\u00e1 Agentura \u010cesk\u00e9 Republiky","ror":"https://ror.org/01pv73b02"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3043024808.pdf","grobid_xml":"https://content.openalex.org/works/W3043024808.grobid-xml"},"referenced_works_count":38,"referenced_works":["https://openalex.org/W1535517661","https://openalex.org/W1604167937","https://openalex.org/W1902630711","https://openalex.org/W1966963894","https://openalex.org/W1973890190","https://openalex.org/W1987073190","https://openalex.org/W1988123909","https://openalex.org/W1993112505","https://openalex.org/W1996109622","https://openalex.org/W2000804241","https://openalex.org/W2002083262","https://openalex.org/W2018670096","https://openalex.org/W2019768978","https://openalex.org/W2039331233","https://openalex.org/W2066594542","https://openalex.org/W2101645257","https://openalex.org/W2102653059","https://openalex.org/W2106001218","https://openalex.org/W2108886305","https://openalex.org/W2116994683","https://openalex.org/W2118039525","https://openalex.org/W2123429492","https://openalex.org/W2127660420","https://openalex.org/W2133035852","https://openalex.org/W2137904930","https://openalex.org/W2149827235","https://openalex.org/W2155418451","https://openalex.org/W2162556737","https://openalex.org/W2167244112","https://openalex.org/W2167718560","https://openalex.org/W2517630823","https://openalex.org/W2752491749","https://openalex.org/W2952167521","https://openalex.org/W2962738471","https://openalex.org/W2963834876","https://openalex.org/W2966097663","https://openalex.org/W3008437073","https://openalex.org/W3099488856"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2390279801","https://openalex.org/W2358668433","https://openalex.org/W2376932109","https://openalex.org/W2001405890","https://openalex.org/W2389214306","https://openalex.org/W2382290278","https://openalex.org/W2478288626","https://openalex.org/W4391913857","https://openalex.org/W2350741829"],"abstract_inverted_index":{"Chemical":[0],"reaction":[1],"networks":[2],"(CRNs)":[3],"play":[4],"a":[5,23,29,63,90,104],"fundamental":[6],"role":[7],"in":[8,103],"analysis":[9,21,37,49,75],"and":[10,56,88],"design":[11],"of":[12,38,66,73,93,100],"biochemical":[13],"systems.":[14],"They":[15],"induce":[16],"continuous-time":[17],"stochastic":[18],"systems,":[19],"whose":[20],"is":[22,53],"computationally":[24],"intensive":[25],"task.":[26],"We":[27],"present":[28],"tool":[30,46],"that":[31,51,69],"implements":[32,47],"the":[33,42,45,48,71,74,83,97,101],"recently":[34],"proposed":[35,43],"semi-quantitative":[36],"CRN.":[39],"Compared":[40],"to":[41,81,108],"theory,":[44],"so":[50],"it":[52],"more":[54,57],"flexible":[55],"precise.":[58],"Further,":[59],"its":[60],"GUI":[61],"offers":[62],"wide":[64],"range":[65],"visualization":[67],"procedures":[68],"facilitate":[70],"interpretation":[72],"results":[76],"as":[77,79],"well":[78],"guidance":[80],"refine":[82],"analysis.":[84],"Finally,":[85],"we":[86],"define":[87],"implement":[89],"new":[91],"notion":[92],"\u201cmean\u201d":[94],"simulations,":[95],"summarizing":[96],"typical":[98],"behaviours":[99],"system":[102],"way":[105],"directly":[106],"comparable":[107],"standard":[109],"simulations":[110],"produced":[111],"by":[112],"other":[113],"tools.":[114]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2022,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
