{"id":"https://openalex.org/W4411469103","doi":"https://doi.org/10.1093/bib/bbaf269","title":"Robust signalling entropy estimation for biological process characterisation","display_name":"Robust signalling entropy estimation for biological process characterisation","publication_year":2025,"publication_date":"2025-05-01","ids":{"openalex":"https://openalex.org/W4411469103","doi":"https://doi.org/10.1093/bib/bbaf269","pmid":"https://pubmed.ncbi.nlm.nih.gov/40532109"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbaf269","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf269","pdf_url":"https://academic.oup.com/bib/article-pdf/26/3/bbaf269/63523380/bbaf269.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/bib/article-pdf/26/3/bbaf269/63523380/bbaf269.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5072182158","display_name":"Ana Stolnicu","orcid":"https://orcid.org/0000-0003-3936-5851"},"institutions":[{"id":"https://openalex.org/I196349391","display_name":"Universit\u00e4t Ulm","ror":"https://ror.org/032000t02","country_code":"DE","type":"education","lineage":["https://openalex.org/I196349391"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Ana Stolnicu","raw_affiliation_strings":["Institute of Medical Systems Biology, Ulm University , 89069 Ulm ,"],"affiliations":[{"raw_affiliation_string":"Institute of Medical Systems Biology, Ulm University , 89069 Ulm ,","institution_ids":["https://openalex.org/I196349391"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024172459","display_name":"Nensi Ikonomi","orcid":"https://orcid.org/0000-0003-0780-5832"},"institutions":[{"id":"https://openalex.org/I196349391","display_name":"Universit\u00e4t Ulm","ror":"https://ror.org/032000t02","country_code":"DE","type":"education","lineage":["https://openalex.org/I196349391"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Nensi Ikonomi","raw_affiliation_strings":["Institute of Medical Systems Biology, Ulm University , 89069 Ulm ,"],"affiliations":[{"raw_affiliation_string":"Institute of Medical Systems Biology, Ulm University , 89069 Ulm ,","institution_ids":["https://openalex.org/I196349391"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073115606","display_name":"Peter Bellmann","orcid":"https://orcid.org/0000-0003-0182-4469"},"institutions":[{"id":"https://openalex.org/I196349391","display_name":"Universit\u00e4t Ulm","ror":"https://ror.org/032000t02","country_code":"DE","type":"education","lineage":["https://openalex.org/I196349391"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Peter Eckhardt-Bellmann","raw_affiliation_strings":["Institute of Medical Systems Biology, Ulm University , 89069 Ulm ,"],"affiliations":[{"raw_affiliation_string":"Institute of Medical Systems Biology, Ulm University , 89069 Ulm ,","institution_ids":["https://openalex.org/I196349391"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023494828","display_name":"Johann M. Kraus","orcid":"https://orcid.org/0000-0002-9534-6295"},"institutions":[{"id":"https://openalex.org/I196349391","display_name":"Universit\u00e4t Ulm","ror":"https://ror.org/032000t02","country_code":"DE","type":"education","lineage":["https://openalex.org/I196349391"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Johann M Kraus","raw_affiliation_strings":["Institute of Medical Systems Biology, Ulm University , 89069 Ulm ,"],"affiliations":[{"raw_affiliation_string":"Institute of Medical Systems Biology, Ulm University , 89069 Ulm ,","institution_ids":["https://openalex.org/I196349391"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023316486","display_name":"Hans A. Kestler","orcid":"https://orcid.org/0000-0002-4759-5254"},"institutions":[{"id":"https://openalex.org/I196349391","display_name":"Universit\u00e4t Ulm","ror":"https://ror.org/032000t02","country_code":"DE","type":"education","lineage":["https://openalex.org/I196349391"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Hans A Kestler","raw_affiliation_strings":["Institute of Medical Systems Biology, Ulm University , 89069 Ulm ,"],"affiliations":[{"raw_affiliation_string":"Institute of Medical Systems Biology, Ulm University , 89069 Ulm ,","institution_ids":["https://openalex.org/I196349391"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5072182158"],"corresponding_institution_ids":["https://openalex.org/I196349391"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":{"value":4011,"currency":"USD","value_usd":4011},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.12775231,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"26","issue":"3","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.9966999888420105,"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":0.9966999888420105,"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/T10876","display_name":"Fault Detection and Control Systems","score":0.9462000131607056,"subfield":{"id":"https://openalex.org/subfields/2207","display_name":"Control and Systems Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9312000274658203,"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/signalling","display_name":"Signalling","score":0.5631775856018066},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5554879903793335},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.4692062735557556},{"id":"https://openalex.org/keywords/entropy","display_name":"Entropy (arrow of time)","score":0.4622687101364136},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4269097149372101},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3621962368488312},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3203890323638916},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23722097277641296},{"id":"https://openalex.org/keywords/cell-biology","display_name":"Cell biology","score":0.07501807808876038}],"concepts":[{"id":"https://openalex.org/C39743133","wikidata":"https://www.wikidata.org/wiki/Q3262595","display_name":"Signalling","level":2,"score":0.5631775856018066},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5554879903793335},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.4692062735557556},{"id":"https://openalex.org/C106301342","wikidata":"https://www.wikidata.org/wiki/Q4117933","display_name":"Entropy (arrow of time)","level":2,"score":0.4622687101364136},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4269097149372101},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3621962368488312},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3203890323638916},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23722097277641296},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.07501807808876038},{"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/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","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":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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":"D008954","descriptor_name":"Models, Biological","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D015398","descriptor_name":"Signal Transduction","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019277","descriptor_name":"Entropy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019277","descriptor_name":"Entropy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019277","descriptor_name":"Entropy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019277","descriptor_name":"Entropy","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D025941","descriptor_name":"Protein Interaction Mapping","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D060066","descriptor_name":"Protein Interaction Maps","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bib/bbaf269","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf269","pdf_url":"https://academic.oup.com/bib/article-pdf/26/3/bbaf269/63523380/bbaf269.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:40532109","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40532109","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:12204201","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/12204201","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":"Brief Bioinform","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bib/bbaf269","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbaf269","pdf_url":"https://academic.oup.com/bib/article-pdf/26/3/bbaf269/63523380/bbaf269.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"is_oa":true,"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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Good health and well-being","score":0.47999998927116394,"id":"https://metadata.un.org/sdg/3"}],"awards":[{"id":"https://openalex.org/G2428234236","display_name":null,"funder_award_id":"SFB 1074","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G6002435875","display_name":null,"funder_award_id":"01KT1901B","funder_id":"https://openalex.org/F4320321114","funder_display_name":"Bundesministerium f\u00fcr Bildung und Forschung"},{"id":"https://openalex.org/G6514247201","display_name":null,"funder_award_id":"SFB 1506","funder_id":"https://openalex.org/F4320320879","funder_display_name":"Deutsche Forschungsgemeinschaft"},{"id":"https://openalex.org/G6895495931","display_name":null,"funder_award_id":"GRK 2254 HEIST","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/F4320321114","display_name":"Bundesministerium f\u00fcr Bildung und Forschung","ror":"https://ror.org/04pz7b180"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4411469103.pdf","grobid_xml":"https://content.openalex.org/works/W4411469103.grobid-xml"},"referenced_works_count":58,"referenced_works":["https://openalex.org/W229097380","https://openalex.org/W1583837637","https://openalex.org/W1591423336","https://openalex.org/W1611787727","https://openalex.org/W1727323740","https://openalex.org/W1894267660","https://openalex.org/W1956694423","https://openalex.org/W1967638691","https://openalex.org/W1982428412","https://openalex.org/W1986688807","https://openalex.org/W1995875735","https://openalex.org/W2002249792","https://openalex.org/W2016893462","https://openalex.org/W2050583899","https://openalex.org/W2057311550","https://openalex.org/W2095590759","https://openalex.org/W2100761975","https://openalex.org/W2105924489","https://openalex.org/W2109384743","https://openalex.org/W2121343862","https://openalex.org/W2123500593","https://openalex.org/W2128049108","https://openalex.org/W2128227526","https://openalex.org/W2133357256","https://openalex.org/W2134962976","https://openalex.org/W2135526239","https://openalex.org/W2139997707","https://openalex.org/W2144384671","https://openalex.org/W2148762636","https://openalex.org/W2154454189","https://openalex.org/W2155723007","https://openalex.org/W2156070536","https://openalex.org/W2156737316","https://openalex.org/W2161466790","https://openalex.org/W2163485494","https://openalex.org/W2163783674","https://openalex.org/W2164298117","https://openalex.org/W2344452957","https://openalex.org/W2478708596","https://openalex.org/W2512415588","https://openalex.org/W2531563875","https://openalex.org/W2620676965","https://openalex.org/W2737500437","https://openalex.org/W2980281204","https://openalex.org/W3034081432","https://openalex.org/W3041503208","https://openalex.org/W3107527779","https://openalex.org/W3161900583","https://openalex.org/W4225905086","https://openalex.org/W4294216483","https://openalex.org/W4318263951","https://openalex.org/W6628842122","https://openalex.org/W6636975626","https://openalex.org/W6637854950","https://openalex.org/W6675339850","https://openalex.org/W6677712588","https://openalex.org/W6704713702","https://openalex.org/W6929990038"],"related_works":["https://openalex.org/W2105336199","https://openalex.org/W4386783876","https://openalex.org/W345412029","https://openalex.org/W3125744081","https://openalex.org/W2076641636","https://openalex.org/W2019308843","https://openalex.org/W2968515508","https://openalex.org/W1596470183","https://openalex.org/W4230084177","https://openalex.org/W2788826046"],"abstract_inverted_index":{"Here,":[0],"we":[1,27],"investigate":[2],"how":[3,56],"the":[4,13,18,41,59],"topology":[5],"of":[6,48,61,71],"distinct":[7],"protein":[8,23],"interaction":[9,24],"networks":[10],"can":[11],"alter":[12],"entropy":[14,19,62],"calculation.":[15],"We":[16],"examine":[17],"derived":[20],"from":[21],"different":[22,30],"networks.":[25],"Additionally,":[26],"systematically":[28],"evaluate":[29],"correction":[31],"strategies,":[32],"outlining":[33],"their":[34],"benefits":[35],"and":[36,50,64,74],"drawbacks":[37],"along":[38],"with":[39],"identifying":[40],"most":[42],"effective":[43],"approaches":[44],"for":[45],"specific":[46],"types":[47],"data":[49],"biological":[51,72],"scenarios.":[52],"This":[53],"protocol":[54],"outlines":[55],"to":[57,67],"optimize":[58],"reliability":[60],"calculations":[63],"ultimately":[65],"leads":[66],"a":[68],"deeper":[69],"comprehension":[70],"processes":[73],"disease":[75],"mechanisms.":[76]},"counts_by_year":[],"updated_date":"2026-04-09T08:11:56.329763","created_date":"2025-10-10T00:00:00"}
