{"id":"https://openalex.org/W2012133308","doi":"https://doi.org/10.1016/j.jtbi.2003.11.016","title":"Topological analysis of mass-balanced signaling networks: a framework to obtain network properties including crosstalk","display_name":"Topological analysis of mass-balanced signaling networks: a framework to obtain network properties including crosstalk","publication_year":2004,"publication_date":"2004-01-27","ids":{"openalex":"https://openalex.org/W2012133308","doi":"https://doi.org/10.1016/j.jtbi.2003.11.016","mag":"2012133308","pmid":"https://pubmed.ncbi.nlm.nih.gov/14990392"},"language":"en","primary_location":{"id":"doi:10.1016/j.jtbi.2003.11.016","doi":"https://doi.org/10.1016/j.jtbi.2003.11.016","is_oa":false,"landing_page_url":"https://doi.org/10.1016/j.jtbi.2003.11.016","pdf_url":null,"source":{"id":"https://openalex.org/S109682412","display_name":"Journal of Theoretical Biology","issn_l":"0022-5193","issn":["0022-5193","1095-8541"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-b","doyens","jufo-2","ki-jl-1","medline","norway-1","poland-70","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Theoretical Biology","raw_type":"journal-article"},"volume":null,"type":"article","indexed_in":["crossref","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/A5000119406","display_name":"Jason A. Papin","orcid":"https://orcid.org/0000-0002-2769-5805","observed_orcids":["https://orcid.org/0000-0002-2769-5805"]},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jason A Papin","raw_affiliation_strings":["Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0412 USA","Dept of Bioengineering, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0412, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0412 USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Dept of Bioengineering, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0412, USA","institution_ids":["https://openalex.org/I36258959"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5051097609","display_name":"Bernhard \u00d8rn Palsson","orcid":"https://orcid.org/0000-0003-2357-6785","observed_orcids":["https://orcid.org/0000-0003-2357-6785"]},"institutions":[{"id":"https://openalex.org/I36258959","display_name":"University of California San Diego","ror":"https://ror.org/0168r3w48","country_code":"US","type":"education","lineage":["https://openalex.org/I36258959"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Bernhard O Palsson","raw_affiliation_strings":["Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0412 USA","Dept of Bioengineering, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0412, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Bioengineering, University of California, San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0412 USA","institution_ids":["https://openalex.org/I36258959"]},{"raw_affiliation_string":"Dept of Bioengineering, University of California San Diego, 9500 Gilman Drive, La Jolla, CA 92093-0412, USA","institution_ids":["https://openalex.org/I36258959"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5051097609"],"corresponding_institution_ids":["https://openalex.org/I36258959"],"apc_list":{"value":2550,"currency":"USD","value_usd":2550},"apc_paid":null,"fwci":4.1426,"has_fulltext":false,"cited_by_count":100,"citation_normalized_percentile":{"value":0.95053727,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":88,"max":99},"biblio":{"volume":"227","issue":"2","first_page":"283","last_page":"297"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.8511000275611877,"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":0.8511000275611877,"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":0.1289999932050705,"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":0.016599999740719795,"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/signaling-networks","display_name":"signaling networks","score":0.8560000061988831},{"id":"https://openalex.org/keywords/pathway-redundancy","display_name":"pathway redundancy","score":0.6290000081062317},{"id":"https://openalex.org/keywords/network-topology","display_name":"network topology","score":0.5019999742507935},{"id":"https://openalex.org/keywords/signaling-pathway-reconstruction","display_name":"signaling pathway reconstruction","score":0.5049999952316284},{"id":"https://openalex.org/keywords/input-output-relationship","display_name":"input-output relationship","score":0.5339999794960022}],"concepts":[{"id":"https://openalex.org/C169822122","wikidata":"https://www.wikidata.org/wiki/Q230187","display_name":"Crosstalk","level":2,"score":0.8692982196807861},{"id":"https://openalex.org/C25516864","wikidata":"https://www.wikidata.org/wiki/Q1665949","display_name":"Interconnectivity","level":2,"score":0.7768663763999939},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5543352365493774},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5020663738250732},{"id":"https://openalex.org/C32946077","wikidata":"https://www.wikidata.org/wiki/Q618079","display_name":"Network analysis","level":2,"score":0.49282220005989075},{"id":"https://openalex.org/C152662350","wikidata":"https://www.wikidata.org/wiki/Q815297","display_name":"Systems biology","level":2,"score":0.48731550574302673},{"id":"https://openalex.org/C48044578","wikidata":"https://www.wikidata.org/wiki/Q727490","display_name":"Scalability","level":2,"score":0.48529237508773804},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.4832787811756134},{"id":"https://openalex.org/C62478195","wikidata":"https://www.wikidata.org/wiki/Q828130","display_name":"Signal transduction","level":2,"score":0.46553292870521545},{"id":"https://openalex.org/C184720557","wikidata":"https://www.wikidata.org/wiki/Q7825049","display_name":"Topology (electrical circuits)","level":2,"score":0.4548899829387665},{"id":"https://openalex.org/C2994130171","wikidata":"https://www.wikidata.org/wiki/Q210973","display_name":"Signaling proteins","level":3,"score":0.43304818868637085},{"id":"https://openalex.org/C2775905019","wikidata":"https://www.wikidata.org/wiki/Q192572","display_name":"In silico","level":3,"score":0.4319204092025757},{"id":"https://openalex.org/C152124472","wikidata":"https://www.wikidata.org/wiki/Q1204361","display_name":"Redundancy (engineering)","level":2,"score":0.4172673225402832},{"id":"https://openalex.org/C150555746","wikidata":"https://www.wikidata.org/wiki/Q210973","display_name":"Cell signaling","level":3,"score":0.411324679851532},{"id":"https://openalex.org/C120314980","wikidata":"https://www.wikidata.org/wiki/Q180634","display_name":"Distributed computing","level":1,"score":0.3822265863418579},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3351319432258606},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.2382746934890747},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.2022603154182434},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.1533520519733429},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.15027427673339844},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.12450730800628662},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.10873737931251526},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.09811878204345703},{"id":"https://openalex.org/C24326235","wikidata":"https://www.wikidata.org/wiki/Q126095","display_name":"Electronic engineering","level":1,"score":0.08544427156448364},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.0},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002477","descriptor_name":"Cells","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","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":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":"Q000502","qualifier_name":"physiology","is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1016/j.jtbi.2003.11.016","doi":"https://doi.org/10.1016/j.jtbi.2003.11.016","is_oa":false,"landing_page_url":"https://doi.org/10.1016/j.jtbi.2003.11.016","pdf_url":null,"source":{"id":"https://openalex.org/S109682412","display_name":"Journal of Theoretical Biology","issn_l":"0022-5193","issn":["0022-5193","1095-8541"],"is_oa":false,"is_in_doaj":false,"is_core":true,"listed_in":["anvur-scientific","cwts-core","dongbi-b","doyens","jufo-2","ki-jl-1","medline","norway-1","poland-70","russia-white-list-1","vabb-shw"],"host_organization":"https://openalex.org/P4310320990","host_organization_name":"Elsevier BV","host_organization_lineage":["https://openalex.org/P4310320990"],"host_organization_lineage_names":["Elsevier BV"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Theoretical Biology","raw_type":"journal-article"},{"id":"pmid:14990392","doi":null,"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/14990392","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,"listed_in":[],"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":"Journal of theoretical biology","raw_type":"Journal Article"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.139.6883","doi":null,"is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.139.6883","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://www.cs.rice.edu/~nakhleh/COMP572/Papers/Lecture13-4.pdf","raw_type":"text"}],"best_oa_location":null,"sustainable_development_goals":[],"study_designs":[],"awards":[{"id":"https://openalex.org/G236069601","display_name":null,"funder_award_id":"GM068837","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G3100764837","display_name":"Network-based Analysis of Kinetics and Regulation","funder_award_id":"R01GM068837","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"}],"funders":[{"id":"https://openalex.org/F4320319990","display_name":"National Institute for Health and Care Research","ror":"https://ror.org/0187kwz08"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":56,"referenced_works":["https://openalex.org/W354640346","https://openalex.org/W1501469166","https://openalex.org/W1524662923","https://openalex.org/W1553833389","https://openalex.org/W1574498833","https://openalex.org/W1623155147","https://openalex.org/W1637936532","https://openalex.org/W1641228030","https://openalex.org/W1758395617","https://openalex.org/W1873506857","https://openalex.org/W1946177469","https://openalex.org/W1964491374","https://openalex.org/W1966392395","https://openalex.org/W1967525449","https://openalex.org/W1967826305","https://openalex.org/W1980396134","https://openalex.org/W1987198680","https://openalex.org/W1989712725","https://openalex.org/W1994656497","https://openalex.org/W1996356699","https://openalex.org/W2012459591","https://openalex.org/W2018591360","https://openalex.org/W2019789576","https://openalex.org/W2022440628","https://openalex.org/W2024963167","https://openalex.org/W2036618934","https://openalex.org/W2037614307","https://openalex.org/W2037718952","https://openalex.org/W2039419058","https://openalex.org/W2042605932","https://openalex.org/W2046254395","https://openalex.org/W2047228180","https://openalex.org/W2063354556","https://openalex.org/W2063475537","https://openalex.org/W2071902637","https://openalex.org/W2075161553","https://openalex.org/W2080372560","https://openalex.org/W2082209194","https://openalex.org/W2086801902","https://openalex.org/W2089441381","https://openalex.org/W2094399313","https://openalex.org/W2094703210","https://openalex.org/W2098709515","https://openalex.org/W2103565638","https://openalex.org/W2106374727","https://openalex.org/W2107333582","https://openalex.org/W2117486132","https://openalex.org/W2139439234","https://openalex.org/W2140403455","https://openalex.org/W2142887429","https://openalex.org/W2144885342","https://openalex.org/W2148190806","https://openalex.org/W2165641442","https://openalex.org/W2171429717","https://openalex.org/W2569576787","https://openalex.org/W4248669983"],"related_works":["https://openalex.org/W1979955019","https://openalex.org/W2107534661","https://openalex.org/W2066580949","https://openalex.org/W1987369697","https://openalex.org/W7098192574","https://openalex.org/W2739721964","https://openalex.org/W6987555040","https://openalex.org/W2584059823","https://openalex.org/W156003978","https://openalex.org/W2174880492"],"abstract_inverted_index":null,"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":4},{"year":2014,"cited_by_count":6},{"year":2013,"cited_by_count":8},{"year":2012,"cited_by_count":6}],"updated_date":"2026-10-31T12:09:11.096373","created_date":"2016-06-24T00:00:00"}
