{"id":"https://openalex.org/W3162881433","doi":"https://doi.org/10.1007/978-3-030-85633-5_16","title":"Ppsim: A Software Package for Efficiently Simulating and Visualizing Population Protocols","display_name":"Ppsim: A Software Package for Efficiently Simulating and Visualizing Population Protocols","publication_year":2021,"publication_date":"2021-01-01","ids":{"openalex":"https://openalex.org/W3162881433","doi":"https://doi.org/10.1007/978-3-030-85633-5_16","mag":"3162881433"},"language":"en","primary_location":{"id":"doi:10.1007/978-3-030-85633-5_16","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-030-85633-5_16","pdf_url":null,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"type":"preprint","indexed_in":["arxiv","crossref","datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://arxiv.org/pdf/2105.04702","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5061641572","display_name":"David Doty","orcid":"https://orcid.org/0000-0002-3922-172X"},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"David Doty","raw_affiliation_strings":["University of California, Davis, USA","Univ. of California Davis"],"affiliations":[{"raw_affiliation_string":"University of California, Davis, USA","institution_ids":["https://openalex.org/I84218800"]},{"raw_affiliation_string":"Univ. of California Davis","institution_ids":["https://openalex.org/I84218800"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5015771168","display_name":"Eric Severson","orcid":null},"institutions":[{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Eric Severson","raw_affiliation_strings":["University of California, Davis, USA","Univ. of California Davis"],"affiliations":[{"raw_affiliation_string":"University of California, Davis, USA","institution_ids":["https://openalex.org/I84218800"]},{"raw_affiliation_string":"Univ. of California Davis","institution_ids":["https://openalex.org/I84218800"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5061641572"],"corresponding_institution_ids":["https://openalex.org/I84218800"],"apc_list":{"value":5000,"currency":"EUR","value_usd":5392},"apc_paid":null,"fwci":0.0,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":{"value":0.08116267,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"245","last_page":"253"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9986000061035156,"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":0.9986000061035156,"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/T10207","display_name":"Advanced biosensing and bioanalysis techniques","score":0.9965999722480774,"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/T12029","display_name":"DNA and Biological Computing","score":0.9944000244140625,"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/python","display_name":"Python (programming language)","score":0.7841525077819824},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6244388818740845},{"id":"https://openalex.org/keywords/population","display_name":"Population","score":0.5970653891563416},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.51103675365448},{"id":"https://openalex.org/keywords/heuristics","display_name":"Heuristics","score":0.49100950360298157},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.47370120882987976},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.4418536424636841},{"id":"https://openalex.org/keywords/theoretical-computer-science","display_name":"Theoretical computer science","score":0.36028769612312317},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.3455731272697449},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.16158273816108704},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.11656826734542847}],"concepts":[{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.7841525077819824},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6244388818740845},{"id":"https://openalex.org/C2908647359","wikidata":"https://www.wikidata.org/wiki/Q2625603","display_name":"Population","level":2,"score":0.5970653891563416},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.51103675365448},{"id":"https://openalex.org/C127705205","wikidata":"https://www.wikidata.org/wiki/Q5748245","display_name":"Heuristics","level":2,"score":0.49100950360298157},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.47370120882987976},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.4418536424636841},{"id":"https://openalex.org/C80444323","wikidata":"https://www.wikidata.org/wiki/Q2878974","display_name":"Theoretical computer science","level":1,"score":0.36028769612312317},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.3455731272697449},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.16158273816108704},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.11656826734542847},{"id":"https://openalex.org/C149923435","wikidata":"https://www.wikidata.org/wiki/Q37732","display_name":"Demography","level":1,"score":0.0},{"id":"https://openalex.org/C144024400","wikidata":"https://www.wikidata.org/wiki/Q21201","display_name":"Sociology","level":0,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[],"locations_count":4,"locations":[{"id":"doi:10.1007/978-3-030-85633-5_16","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-030-85633-5_16","pdf_url":null,"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":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},{"id":"pmh:oai:arXiv.org:2105.04702","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2105.04702","pdf_url":"https://arxiv.org/pdf/2105.04702","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"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":"text"},{"id":"mag:3162881433","is_oa":true,"landing_page_url":"http://export.arxiv.org/pdf/2105.04702","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"arXiv (Cornell University)","raw_type":null},{"id":"doi:10.48550/arxiv.2105.04702","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.2105.04702","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"article"}],"best_oa_location":{"id":"pmh:oai:arXiv.org:2105.04702","is_oa":true,"landing_page_url":"http://arxiv.org/abs/2105.04702","pdf_url":"https://arxiv.org/pdf/2105.04702","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"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":"text"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":32,"referenced_works":["https://openalex.org/W1791720531","https://openalex.org/W1970304727","https://openalex.org/W1976443948","https://openalex.org/W1987003260","https://openalex.org/W1990476699","https://openalex.org/W2011432832","https://openalex.org/W2041261527","https://openalex.org/W2059505795","https://openalex.org/W2078734278","https://openalex.org/W2084924279","https://openalex.org/W2127740987","https://openalex.org/W2155418451","https://openalex.org/W2167154952","https://openalex.org/W2399651233","https://openalex.org/W2609887493","https://openalex.org/W2706788079","https://openalex.org/W2738922137","https://openalex.org/W2743261842","https://openalex.org/W2768998600","https://openalex.org/W2784304773","https://openalex.org/W2907311168","https://openalex.org/W2952620388","https://openalex.org/W2963174035","https://openalex.org/W2963844133","https://openalex.org/W2968569765","https://openalex.org/W3009864067","https://openalex.org/W3011831250","https://openalex.org/W3016416987","https://openalex.org/W3022212462","https://openalex.org/W3081813709","https://openalex.org/W3091645626","https://openalex.org/W3184567057"],"related_works":["https://openalex.org/W644190259","https://openalex.org/W1669516708","https://openalex.org/W1908861217","https://openalex.org/W2079235644","https://openalex.org/W2162351207","https://openalex.org/W1515834851","https://openalex.org/W3185969654","https://openalex.org/W2116081828","https://openalex.org/W2118698446","https://openalex.org/W2118190603","https://openalex.org/W2054372971","https://openalex.org/W1994867434","https://openalex.org/W2121048687","https://openalex.org/W3102577161","https://openalex.org/W2243241836","https://openalex.org/W5947967","https://openalex.org/W2999307977","https://openalex.org/W1507304228","https://openalex.org/W1774803432","https://openalex.org/W2096193885"],"abstract_inverted_index":null,"counts_by_year":[],"updated_date":"2026-03-20T23:20:44.827607","created_date":"2025-10-10T00:00:00"}
