{"id":"https://openalex.org/W2148523353","doi":"https://doi.org/10.1093/bioinformatics/btq276","title":"DA 1.0: parameter estimation of biological pathways using data assimilation approach","display_name":"DA 1.0: parameter estimation of biological pathways using data assimilation approach","publication_year":2010,"publication_date":"2010-05-26","ids":{"openalex":"https://openalex.org/W2148523353","doi":"https://doi.org/10.1093/bioinformatics/btq276","mag":"2148523353","pmid":"https://pubmed.ncbi.nlm.nih.gov/20505000"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btq276","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq276","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","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/A5012980019","display_name":"Chuan Hock Koh","orcid":null},"institutions":[{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP","SG"],"is_corresponding":false,"raw_author_name":"Chuan Hock Koh","raw_affiliation_strings":["1 NUS Graduate School for Integrative Sciences and Engineering, Singapore 117597, 2 School of Computing, National University of Singapore, Computing Drive, Singapore 117417 and 3 Human Genome Center, Institute of Medical Science, the University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan"],"affiliations":[{"raw_affiliation_string":"1 NUS Graduate School for Integrative Sciences and Engineering, Singapore 117597, 2 School of Computing, National University of Singapore, Computing Drive, Singapore 117417 and 3 Human Genome Center, Institute of Medical Science, the University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan","institution_ids":["https://openalex.org/I165932596","https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025220924","display_name":"Masao Nagasaki","orcid":"https://orcid.org/0000-0002-4292-8785"},"institutions":[{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP","SG"],"is_corresponding":true,"raw_author_name":"Masao Nagasaki","raw_affiliation_strings":["1 NUS Graduate School for Integrative Sciences and Engineering, Singapore 117597, 2 School of Computing, National University of Singapore, Computing Drive, Singapore 117417 and 3 Human Genome Center, Institute of Medical Science, the University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan"],"affiliations":[{"raw_affiliation_string":"1 NUS Graduate School for Integrative Sciences and Engineering, Singapore 117597, 2 School of Computing, National University of Singapore, Computing Drive, Singapore 117417 and 3 Human Genome Center, Institute of Medical Science, the University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan","institution_ids":["https://openalex.org/I165932596","https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079013346","display_name":"Ayumu Saito","orcid":null},"institutions":[{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP","SG"],"is_corresponding":false,"raw_author_name":"Ayumu Saito","raw_affiliation_strings":["1 NUS Graduate School for Integrative Sciences and Engineering, Singapore 117597, 2 School of Computing, National University of Singapore, Computing Drive, Singapore 117417 and 3 Human Genome Center, Institute of Medical Science, the University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan"],"affiliations":[{"raw_affiliation_string":"1 NUS Graduate School for Integrative Sciences and Engineering, Singapore 117597, 2 School of Computing, National University of Singapore, Computing Drive, Singapore 117417 and 3 Human Genome Center, Institute of Medical Science, the University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan","institution_ids":["https://openalex.org/I165932596","https://openalex.org/I74801974"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012381970","display_name":"Limsoon Wong","orcid":"https://orcid.org/0000-0003-1241-5441"},"institutions":[{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]},{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]}],"countries":["JP","SG"],"is_corresponding":false,"raw_author_name":"Limsoon Wong","raw_affiliation_strings":["1 NUS Graduate School for Integrative Sciences and Engineering, Singapore 117597, 2 School of Computing, National University of Singapore, Computing Drive, Singapore 117417 and 3 Human Genome Center, Institute of Medical Science, the University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan"],"affiliations":[{"raw_affiliation_string":"1 NUS Graduate School for Integrative Sciences and Engineering, Singapore 117597, 2 School of Computing, National University of Singapore, Computing Drive, Singapore 117417 and 3 Human Genome Center, Institute of Medical Science, the University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan","institution_ids":["https://openalex.org/I165932596","https://openalex.org/I74801974"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5088167618","display_name":"Satoru Miyano","orcid":"https://orcid.org/0000-0002-1753-6616"},"institutions":[{"id":"https://openalex.org/I165932596","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49","country_code":"SG","type":"education","lineage":["https://openalex.org/I165932596"]},{"id":"https://openalex.org/I74801974","display_name":"The University of Tokyo","ror":"https://ror.org/057zh3y96","country_code":"JP","type":"education","lineage":["https://openalex.org/I74801974"]}],"countries":["JP","SG"],"is_corresponding":false,"raw_author_name":"Satoru Miyano","raw_affiliation_strings":["1 NUS Graduate School for Integrative Sciences and Engineering, Singapore 117597, 2 School of Computing, National University of Singapore, Computing Drive, Singapore 117417 and 3 Human Genome Center, Institute of Medical Science, the University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan"],"affiliations":[{"raw_affiliation_string":"1 NUS Graduate School for Integrative Sciences and Engineering, Singapore 117597, 2 School of Computing, National University of Singapore, Computing Drive, Singapore 117417 and 3 Human Genome Center, Institute of Medical Science, the University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan","institution_ids":["https://openalex.org/I165932596","https://openalex.org/I74801974"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5025220924"],"corresponding_institution_ids":["https://openalex.org/I165932596","https://openalex.org/I74801974"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.793,"has_fulltext":false,"cited_by_count":11,"citation_normalized_percentile":{"value":0.71794264,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"26","issue":"14","first_page":"1794","last_page":"1796"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","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/T10887","display_name":"Bioinformatics and Genomic Networks","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/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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9934999942779541,"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/executable","display_name":"Executable","score":0.9138727188110352},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.7798111438751221},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7248782515525818},{"id":"https://openalex.org/keywords/particle-filter","display_name":"Particle filter","score":0.6538060903549194},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.6411195993423462},{"id":"https://openalex.org/keywords/monte-carlo-method","display_name":"Monte Carlo method","score":0.5818062424659729},{"id":"https://openalex.org/keywords/data-assimilation","display_name":"Data assimilation","score":0.5722178816795349},{"id":"https://openalex.org/keywords/interface","display_name":"Interface (matter)","score":0.4823448061943054},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.33558300137519836},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.32986295223236084},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.2946094274520874},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.29010963439941406},{"id":"https://openalex.org/keywords/statistics","display_name":"Statistics","score":0.1789972186088562},{"id":"https://openalex.org/keywords/kalman-filter","display_name":"Kalman filter","score":0.14838707447052002},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.1291767954826355},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.10326090455055237}],"concepts":[{"id":"https://openalex.org/C160145156","wikidata":"https://www.wikidata.org/wiki/Q778586","display_name":"Executable","level":2,"score":0.9138727188110352},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.7798111438751221},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7248782515525818},{"id":"https://openalex.org/C52421305","wikidata":"https://www.wikidata.org/wiki/Q1151499","display_name":"Particle filter","level":3,"score":0.6538060903549194},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.6411195993423462},{"id":"https://openalex.org/C19499675","wikidata":"https://www.wikidata.org/wiki/Q232207","display_name":"Monte Carlo method","level":2,"score":0.5818062424659729},{"id":"https://openalex.org/C24552861","wikidata":"https://www.wikidata.org/wiki/Q2670177","display_name":"Data assimilation","level":2,"score":0.5722178816795349},{"id":"https://openalex.org/C113843644","wikidata":"https://www.wikidata.org/wiki/Q901882","display_name":"Interface (matter)","level":4,"score":0.4823448061943054},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.33558300137519836},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.32986295223236084},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.2946094274520874},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.29010963439941406},{"id":"https://openalex.org/C105795698","wikidata":"https://www.wikidata.org/wiki/Q12483","display_name":"Statistics","level":1,"score":0.1789972186088562},{"id":"https://openalex.org/C157286648","wikidata":"https://www.wikidata.org/wiki/Q846780","display_name":"Kalman filter","level":2,"score":0.14838707447052002},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.1291767954826355},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.10326090455055237},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C153294291","wikidata":"https://www.wikidata.org/wiki/Q25261","display_name":"Meteorology","level":1,"score":0.0},{"id":"https://openalex.org/C157915830","wikidata":"https://www.wikidata.org/wiki/Q2928001","display_name":"Bubble","level":2,"score":0.0},{"id":"https://openalex.org/C129307140","wikidata":"https://www.wikidata.org/wiki/Q6795880","display_name":"Maximum bubble pressure method","level":3,"score":0.0}],"mesh":[{"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":"D009010","descriptor_name":"Monte Carlo Method","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009010","descriptor_name":"Monte Carlo Method","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009010","descriptor_name":"Monte Carlo Method","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016208","descriptor_name":"Databases, Factual","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btq276","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq276","pdf_url":null,"source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:20505000","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20505000","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":"Bioinformatics (Oxford, England)","raw_type":null},{"id":"pmh:oai:scholarbank.nus.edu.sg:10635/39759","is_oa":false,"landing_page_url":"http://scholarbank.nus.edu.sg/handle/10635/39759","pdf_url":null,"source":{"id":"https://openalex.org/S7407052290","display_name":"National University of Singapore","issn_l":null,"issn":[],"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":"Scopus","raw_type":"Article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320698","display_name":"National University of Singapore","ror":"https://ror.org/01tgyzw49"},{"id":"https://openalex.org/F4320320709","display_name":"National Research Foundation Singapore","ror":"https://ror.org/03cpyc314"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":10,"referenced_works":["https://openalex.org/W1986397618","https://openalex.org/W2137791798","https://openalex.org/W2144323650","https://openalex.org/W2151449559","https://openalex.org/W2154751475","https://openalex.org/W2161080454","https://openalex.org/W2162505680","https://openalex.org/W6680173676","https://openalex.org/W6682728839","https://openalex.org/W6682766005"],"related_works":["https://openalex.org/W2350278424","https://openalex.org/W2071432835","https://openalex.org/W4234371507","https://openalex.org/W4299534542","https://openalex.org/W1628824497","https://openalex.org/W4239401009","https://openalex.org/W2053441600","https://openalex.org/W1990401748","https://openalex.org/W2047586841","https://openalex.org/W2141018266"],"abstract_inverted_index":{"DA":[0,23],"1.0":[1,24],"was":[2],"developed":[3],"using":[4],"Java":[5],"and":[6,31],"thus":[7],"would":[8],"be":[9,33],"executable":[10],"on":[11],"any":[12],"platform":[13],"installed":[14],"with":[15],"JDK":[16],"6.0":[17],"(not":[18],"JRE":[19],"6.0)":[20],"or":[21,35],"later.":[22],"is":[25],"freely":[26],"available":[27],"for":[28],"academic":[29],"users":[30],"can":[32],"launched":[34],"downloaded":[36],"from":[37],"http://da.csml.org.":[38]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":3},{"year":2012,"cited_by_count":1}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
