{"id":"https://openalex.org/W2056894053","doi":"https://doi.org/10.1145/2649387.2660805","title":"NINJA","display_name":"NINJA","publication_year":2014,"publication_date":"2014-09-20","ids":{"openalex":"https://openalex.org/W2056894053","doi":"https://doi.org/10.1145/2649387.2660805","mag":"2056894053"},"language":"en","primary_location":{"id":"doi:10.1145/2649387.2660805","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2649387.2660805","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics","raw_type":"proceedings-article"},"type":"conference-paper","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/A5068532782","display_name":"Aadithya V. Karthik","orcid":null},"institutions":[{"id":"https://openalex.org/I134446601","display_name":"Berkeley College","ror":"https://ror.org/02xewxa75","country_code":"US","type":"education","lineage":["https://openalex.org/I134446601"]},{"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"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Aadithya V. Karthik","raw_affiliation_strings":["UC Berkeley","UC BERKELEY"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"UC Berkeley","institution_ids":["https://openalex.org/I134446601","https://openalex.org/I95457486"]},{"raw_affiliation_string":"UC BERKELEY","institution_ids":["https://openalex.org/I134446601"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5065095363","display_name":"David Soloveichik","orcid":"https://orcid.org/0000-0002-2585-4120"},"institutions":[{"id":"https://openalex.org/I180670191","display_name":"University of California, San Francisco","ror":"https://ror.org/043mz5j54","country_code":"US","type":"education","lineage":["https://openalex.org/I180670191"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David Soloveichik","raw_affiliation_strings":["Center for Systems and Synthetic Biology, UC San Francisco","Center for Systems and Synthetic Biology, UC San Francisco#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Systems and Synthetic Biology, UC San Francisco","institution_ids":["https://openalex.org/I180670191"]},{"raw_affiliation_string":"Center for Systems and Synthetic Biology, UC San Francisco#TAB#","institution_ids":["https://openalex.org/I180670191"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5044595322","display_name":"Sayak Ray","orcid":"https://orcid.org/0000-0003-3944-6715"},"institutions":[{"id":"https://openalex.org/I20089843","display_name":"Princeton University","ror":"https://ror.org/00hx57361","country_code":"US","type":"education","lineage":["https://openalex.org/I20089843"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Sayak Ray","raw_affiliation_strings":["Princeton University","Princeton University#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Princeton University","institution_ids":["https://openalex.org/I20089843"]},{"raw_affiliation_string":"Princeton University#TAB#","institution_ids":["https://openalex.org/I20089843"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047617269","display_name":"Baruch Sterin","orcid":null},"institutions":[{"id":"https://openalex.org/I134446601","display_name":"Berkeley College","ror":"https://ror.org/02xewxa75","country_code":"US","type":"education","lineage":["https://openalex.org/I134446601"]},{"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"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Baruch Sterin","raw_affiliation_strings":["UC Berkeley","UC BERKELEY"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"UC Berkeley","institution_ids":["https://openalex.org/I134446601","https://openalex.org/I95457486"]},{"raw_affiliation_string":"UC BERKELEY","institution_ids":["https://openalex.org/I134446601"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5110450560","display_name":"Alan Mishchenko","orcid":"https://orcid.org/0009-0004-1303-6261"},"institutions":[{"id":"https://openalex.org/I134446601","display_name":"Berkeley College","ror":"https://ror.org/02xewxa75","country_code":"US","type":"education","lineage":["https://openalex.org/I134446601"]},{"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"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alan Mishchenko","raw_affiliation_strings":["UC Berkeley","UC BERKELEY"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"UC Berkeley","institution_ids":["https://openalex.org/I134446601","https://openalex.org/I95457486"]},{"raw_affiliation_string":"UC BERKELEY","institution_ids":["https://openalex.org/I134446601"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064568178","display_name":"Robert K. Brayton","orcid":"https://orcid.org/0000-0002-3861-1718"},"institutions":[{"id":"https://openalex.org/I134446601","display_name":"Berkeley College","ror":"https://ror.org/02xewxa75","country_code":"US","type":"education","lineage":["https://openalex.org/I134446601"]},{"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"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Robert Brayton","raw_affiliation_strings":["UC Berkeley","UC BERKELEY"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"UC Berkeley","institution_ids":["https://openalex.org/I134446601","https://openalex.org/I95457486"]},{"raw_affiliation_string":"UC BERKELEY","institution_ids":["https://openalex.org/I134446601"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5086798203","display_name":"Jaijeet Roychowdhury","orcid":"https://orcid.org/0000-0002-2684-2279"},"institutions":[{"id":"https://openalex.org/I134446601","display_name":"Berkeley College","ror":"https://ror.org/02xewxa75","country_code":"US","type":"education","lineage":["https://openalex.org/I134446601"]},{"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"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jaijeet Roychowdhury","raw_affiliation_strings":["UC Berkeley","UC BERKELEY"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"UC Berkeley","institution_ids":["https://openalex.org/I134446601","https://openalex.org/I95457486"]},{"raw_affiliation_string":"UC BERKELEY","institution_ids":["https://openalex.org/I134446601"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":null,"has_fulltext":false,"cited_by_count":0,"citation_normalized_percentile":null,"cited_by_percentile_year":null,"biblio":{"volume":null,"issue":null,"first_page":"623","last_page":"624"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9961000084877014,"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":0.9961000084877014,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.9549000263214111,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"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":0.9422000050544739,"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":0.7470234632492065},{"id":"https://openalex.org/keywords/suite","display_name":"Suite","score":0.5879287719726562},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.3514064848423004}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7470234632492065},{"id":"https://openalex.org/C79581498","wikidata":"https://www.wikidata.org/wiki/Q1367530","display_name":"Suite","level":2,"score":0.5879287719726562},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.3514064848423004},{"id":"https://openalex.org/C166957645","wikidata":"https://www.wikidata.org/wiki/Q23498","display_name":"Archaeology","level":1,"score":0.0},{"id":"https://openalex.org/C95457728","wikidata":"https://www.wikidata.org/wiki/Q309","display_name":"History","level":0,"score":0.0}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1145/2649387.2660805","is_oa":false,"landing_page_url":"https://doi.org/10.1145/2649387.2660805","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 5th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics","raw_type":"proceedings-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":0,"referenced_works":[],"related_works":["https://openalex.org/W4391375266","https://openalex.org/W2748952813","https://openalex.org/W4231704780","https://openalex.org/W2083794993","https://openalex.org/W352609212","https://openalex.org/W4200340037","https://openalex.org/W1511772879","https://openalex.org/W4379115841","https://openalex.org/W608917066","https://openalex.org/W4283652261"],"abstract_inverted_index":{"We":[0],"present":[1],"NINJA,":[2],"a":[3],"suite":[4],"of":[5,14],"computational":[6],"techniques":[7],"for":[8],"modelling":[9],"and":[10],"formally":[11],"verifying":[12],"properties":[13],"tiered-rate":[15],"chemical":[16],"reaction":[17],"networks.":[18]},"counts_by_year":[],"updated_date":"2026-07-14T23:27:15.235271","created_date":"2016-06-24T00:00:00"}
