{"id":"https://openalex.org/W2149951637","doi":"https://doi.org/10.1093/bioinformatics/btp271","title":"Systematic analysis of synchronized oscillatory neuronal networks reveals an enrichment for coupled direct and indirect feedback motifs","display_name":"Systematic analysis of synchronized oscillatory neuronal networks reveals an enrichment for coupled direct and indirect feedback motifs","publication_year":2009,"publication_date":"2009-04-23","ids":{"openalex":"https://openalex.org/W2149951637","doi":"https://doi.org/10.1093/bioinformatics/btp271","mag":"2149951637","pmid":"https://pubmed.ncbi.nlm.nih.gov/19389738"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btp271","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp271","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/13/1680/48996711/bioinformatics_25_13_1680.pdf","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":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/25/13/1680/48996711/bioinformatics_25_13_1680.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5068895288","display_name":"Chaoyi Dong","orcid":"https://orcid.org/0000-0001-8433-8903"},"institutions":[{"id":"https://openalex.org/I157485424","display_name":"Korea Advanced Institute of Science and Technology","ror":"https://ror.org/05apxxy63","country_code":"KR","type":"education","lineage":["https://openalex.org/I157485424"]},{"id":"https://openalex.org/I197347611","display_name":"Korea University","ror":"https://ror.org/047dqcg40","country_code":"KR","type":"education","lineage":["https://openalex.org/I197347611"]},{"id":"https://openalex.org/I55654194","display_name":"Inner Mongolia University of Technology","ror":"https://ror.org/05564e019","country_code":"CN","type":"education","lineage":["https://openalex.org/I55654194"]}],"countries":["CN","KR"],"is_corresponding":false,"raw_author_name":"Chao-Yi Dong","raw_affiliation_strings":["1 Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology (KAIST), 335 Gwahangno, Yuseong-gu, Daejeon 305-701, 2School of Electrical Engineering, Korea University, Seoul 136-713, Republic of Korea and 3School of Information Engineering, Inner Mongolia University of Technology, Huhhot 010051, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology (KAIST), 335 Gwahangno, Yuseong-gu, Daejeon 305-701, 2School of Electrical Engineering, Korea University, Seoul 136-713, Republic of Korea and 3School of Information Engineering, Inner Mongolia University of Technology, Huhhot 010051, China","institution_ids":["https://openalex.org/I55654194","https://openalex.org/I197347611","https://openalex.org/I157485424"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5047786297","display_name":"Jisoon Lim","orcid":null},"institutions":[{"id":"https://openalex.org/I157485424","display_name":"Korea Advanced Institute of Science and Technology","ror":"https://ror.org/05apxxy63","country_code":"KR","type":"education","lineage":["https://openalex.org/I157485424"]},{"id":"https://openalex.org/I197347611","display_name":"Korea University","ror":"https://ror.org/047dqcg40","country_code":"KR","type":"education","lineage":["https://openalex.org/I197347611"]},{"id":"https://openalex.org/I55654194","display_name":"Inner Mongolia University of Technology","ror":"https://ror.org/05564e019","country_code":"CN","type":"education","lineage":["https://openalex.org/I55654194"]}],"countries":["CN","KR"],"is_corresponding":false,"raw_author_name":"Jisoon Lim","raw_affiliation_strings":["1 Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology (KAIST), 335 Gwahangno, Yuseong-gu, Daejeon 305-701, 2School of Electrical Engineering, Korea University, Seoul 136-713, Republic of Korea and 3School of Information Engineering, Inner Mongolia University of Technology, Huhhot 010051, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology (KAIST), 335 Gwahangno, Yuseong-gu, Daejeon 305-701, 2School of Electrical Engineering, Korea University, Seoul 136-713, Republic of Korea and 3School of Information Engineering, Inner Mongolia University of Technology, Huhhot 010051, China","institution_ids":["https://openalex.org/I55654194","https://openalex.org/I197347611","https://openalex.org/I157485424"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5062040384","display_name":"Yoonkey Nam","orcid":"https://orcid.org/0000-0003-4801-9547"},"institutions":[{"id":"https://openalex.org/I157485424","display_name":"Korea Advanced Institute of Science and Technology","ror":"https://ror.org/05apxxy63","country_code":"KR","type":"education","lineage":["https://openalex.org/I157485424"]},{"id":"https://openalex.org/I197347611","display_name":"Korea University","ror":"https://ror.org/047dqcg40","country_code":"KR","type":"education","lineage":["https://openalex.org/I197347611"]},{"id":"https://openalex.org/I55654194","display_name":"Inner Mongolia University of Technology","ror":"https://ror.org/05564e019","country_code":"CN","type":"education","lineage":["https://openalex.org/I55654194"]}],"countries":["CN","KR"],"is_corresponding":true,"raw_author_name":"Yoonkey Nam","raw_affiliation_strings":["1 Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology (KAIST), 335 Gwahangno, Yuseong-gu, Daejeon 305-701, 2School of Electrical Engineering, Korea University, Seoul 136-713, Republic of Korea and 3School of Information Engineering, Inner Mongolia University of Technology, Huhhot 010051, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology (KAIST), 335 Gwahangno, Yuseong-gu, Daejeon 305-701, 2School of Electrical Engineering, Korea University, Seoul 136-713, Republic of Korea and 3School of Information Engineering, Inner Mongolia University of Technology, Huhhot 010051, China","institution_ids":["https://openalex.org/I55654194","https://openalex.org/I197347611","https://openalex.org/I157485424"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5034286632","display_name":"Kwang\u2010Hyun Cho","orcid":"https://orcid.org/0000-0002-7380-7142"},"institutions":[{"id":"https://openalex.org/I157485424","display_name":"Korea Advanced Institute of Science and Technology","ror":"https://ror.org/05apxxy63","country_code":"KR","type":"education","lineage":["https://openalex.org/I157485424"]},{"id":"https://openalex.org/I197347611","display_name":"Korea University","ror":"https://ror.org/047dqcg40","country_code":"KR","type":"education","lineage":["https://openalex.org/I197347611"]},{"id":"https://openalex.org/I55654194","display_name":"Inner Mongolia University of Technology","ror":"https://ror.org/05564e019","country_code":"CN","type":"education","lineage":["https://openalex.org/I55654194"]}],"countries":["CN","KR"],"is_corresponding":true,"raw_author_name":"Kwang-Hyun Cho","raw_affiliation_strings":["1 Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology (KAIST), 335 Gwahangno, Yuseong-gu, Daejeon 305-701, 2School of Electrical Engineering, Korea University, Seoul 136-713, Republic of Korea and 3School of Information Engineering, Inner Mongolia University of Technology, Huhhot 010051, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Department of Bio and Brain Engineering, Korea Advanced Institute of Science and Technology (KAIST), 335 Gwahangno, Yuseong-gu, Daejeon 305-701, 2School of Electrical Engineering, Korea University, Seoul 136-713, Republic of Korea and 3School of Information Engineering, Inner Mongolia University of Technology, Huhhot 010051, China","institution_ids":["https://openalex.org/I55654194","https://openalex.org/I197347611","https://openalex.org/I157485424"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5034286632","https://openalex.org/A5062040384"],"corresponding_institution_ids":["https://openalex.org/I157485424","https://openalex.org/I197347611","https://openalex.org/I55654194"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.2105,"has_fulltext":true,"cited_by_count":14,"citation_normalized_percentile":{"value":0.8075841,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"25","issue":"13","first_page":"1680","last_page":"1685"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11513","display_name":"stochastic dynamics and bifurcation","score":0.45320001244544983,"subfield":{"id":"https://openalex.org/subfields/3109","display_name":"Statistical and Nonlinear Physics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T11513","display_name":"stochastic dynamics and bifurcation","score":0.45320001244544983,"subfield":{"id":"https://openalex.org/subfields/3109","display_name":"Statistical and Nonlinear Physics"},"field":{"id":"https://openalex.org/fields/31","display_name":"Physics and Astronomy"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11187","display_name":"Nonlinear Dynamics and Pattern Formation","score":0.32249999046325684,"subfield":{"id":"https://openalex.org/subfields/1705","display_name":"Computer Networks and Communications"},"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/T10581","display_name":"Neural dynamics and brain function","score":0.14079999923706055,"subfield":{"id":"https://openalex.org/subfields/2805","display_name":"Cognitive Neuroscience"},"field":{"id":"https://openalex.org/fields/28","display_name":"Neuroscience"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5645369291305542},{"id":"https://openalex.org/keywords/neuroscience","display_name":"Neuroscience","score":0.49625879526138306},{"id":"https://openalex.org/keywords/network-analysis","display_name":"Network analysis","score":0.4370710849761963},{"id":"https://openalex.org/keywords/synchronization","display_name":"Synchronization (alternating current)","score":0.4213999807834625},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.37846672534942627},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.342606782913208},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.1964355707168579},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.118750661611557}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5645369291305542},{"id":"https://openalex.org/C169760540","wikidata":"https://www.wikidata.org/wiki/Q207011","display_name":"Neuroscience","level":1,"score":0.49625879526138306},{"id":"https://openalex.org/C32946077","wikidata":"https://www.wikidata.org/wiki/Q618079","display_name":"Network analysis","level":2,"score":0.4370710849761963},{"id":"https://openalex.org/C2778562939","wikidata":"https://www.wikidata.org/wiki/Q1298791","display_name":"Synchronization (alternating current)","level":3,"score":0.4213999807834625},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.37846672534942627},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.342606782913208},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.1964355707168579},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.118750661611557},{"id":"https://openalex.org/C127162648","wikidata":"https://www.wikidata.org/wiki/Q16858953","display_name":"Channel (broadcasting)","level":2,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","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":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D003198","descriptor_name":"Computer Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D049490","descriptor_name":"Systems Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btp271","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp271","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/13/1680/48996711/bioinformatics_25_13_1680.pdf","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:19389738","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19389738","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}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btp271","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp271","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/13/1680/48996711/bioinformatics_25_13_1680.pdf","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"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2149951637.pdf","grobid_xml":"https://content.openalex.org/works/W2149951637.grobid-xml"},"referenced_works_count":47,"referenced_works":["https://openalex.org/W101771737","https://openalex.org/W1588361932","https://openalex.org/W1599105596","https://openalex.org/W1611404903","https://openalex.org/W1637936532","https://openalex.org/W1653233231","https://openalex.org/W1876456565","https://openalex.org/W1972733887","https://openalex.org/W1973801776","https://openalex.org/W1979230873","https://openalex.org/W1985572262","https://openalex.org/W1993592538","https://openalex.org/W1993899334","https://openalex.org/W1994373703","https://openalex.org/W2006370340","https://openalex.org/W2007776159","https://openalex.org/W2022186738","https://openalex.org/W2022907226","https://openalex.org/W2029030701","https://openalex.org/W2042061656","https://openalex.org/W2057213277","https://openalex.org/W2060568420","https://openalex.org/W2066223279","https://openalex.org/W2066394526","https://openalex.org/W2070397412","https://openalex.org/W2071880755","https://openalex.org/W2084793648","https://openalex.org/W2086174087","https://openalex.org/W2092449618","https://openalex.org/W2098501743","https://openalex.org/W2101967362","https://openalex.org/W2102297429","https://openalex.org/W2106338780","https://openalex.org/W2114079854","https://openalex.org/W2115708039","https://openalex.org/W2115720575","https://openalex.org/W2123482247","https://openalex.org/W2129153032","https://openalex.org/W2139884531","https://openalex.org/W2140631980","https://openalex.org/W2153624566","https://openalex.org/W2171580484","https://openalex.org/W2414710795","https://openalex.org/W2605543710","https://openalex.org/W2798909945","https://openalex.org/W4251514565","https://openalex.org/W6636957865"],"related_works":["https://openalex.org/W2082860237","https://openalex.org/W2119695867","https://openalex.org/W2130076355","https://openalex.org/W1990804418","https://openalex.org/W1993764875","https://openalex.org/W2046158694","https://openalex.org/W2788277189","https://openalex.org/W1971568933","https://openalex.org/W2013243191","https://openalex.org/W2117258802"],"abstract_inverted_index":{"MOTIVATION:":[0],"Synchronized":[1],"bursting":[2,76,113,181],"behavior":[3,77,182],"is":[4,18],"a":[5,26,96,122,151],"remarkable":[6],"phenomenon":[7],"in":[8,45,63,81,183,193],"neural":[9,82,142],"dynamics.":[10],"So,":[11],"identification":[12,125],"of":[13,88,99,144,189],"the":[14,30,72,179],"underlying":[15],"functional":[16],"structure":[17,98],"crucial":[19],"to":[20,135,192],"understand":[21],"its":[22],"regulatory":[23,60],"mechanism":[24],"at":[25],"system":[27],"level.":[28],"On":[29],"other":[31],"hand,":[32],"we":[33,69,93,119,153],"noted":[34],"that":[35,95,165,177],"feedback":[36,79,106],"loops":[37,107],"(FBLs)":[38],"are":[39],"commonly":[40],"used":[41],"basic":[42],"building":[43],"blocks":[44],"engineering":[46],"circuit":[47],"design,":[48],"especially":[49],"for":[50],"synchronization,":[51],"and":[52,78,103,132,158,168],"they":[53],"have":[54,70,120,154],"also":[55],"been":[56],"considered":[57],"as":[58],"important":[59,174],"network":[61],"motifs":[62,80],"systems":[64],"biology.":[65],"From":[66],"these":[67],"motivations,":[68],"investigated":[71],"relationship":[73],"between":[74],"synchronized":[75,112,136,180],"networks.":[83],"RESULTS:":[84],"Through":[85],"extensive":[86],"simulations":[87],"synthetic":[89],"spike":[90],"oscillation":[91],"models,":[92],"found":[94],"particular":[97],"FBLs,":[100],"coupled":[101,156,166],"direct":[102,157,167],"indirect":[104,159,169],"positive":[105],"(PFLs),":[108],"can":[109],"induce":[110],"robust":[111],"behaviors.":[114],"To":[115],"further":[116],"investigate":[117],"this,":[118],"developed":[121],"novel":[123],"FBL":[124],"method":[126],"based":[127],"on":[128],"sampled":[129],"time-series":[130],"data":[131],"applied":[133],"it":[134],"spiking":[137],"records":[138],"measured":[139],"from":[140],"cultured":[141],"networks":[143,185],"rat":[145],"by":[146],"using":[147],"multi-electrode":[148],"array.":[149],"As":[150],"result,":[152],"identified":[155],"PFLs.":[160],"CONCLUSION:":[161],"We":[162],"therefore":[163],"conclude":[164],"PFLs":[170],"might":[171],"be":[172],"an":[173,187,199],"design":[175],"principle":[176],"causes":[178],"neuronal":[184],"although":[186],"extrapolation":[188],"this":[190],"result":[191],"vivo":[194],"brain":[195],"dynamics":[196],"still":[197],"remains":[198],"unanswered":[200],"question.":[201]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2014,"cited_by_count":2},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":3}],"updated_date":"2026-05-26T13:28:51.108037","created_date":"2025-10-10T00:00:00"}
