{"id":"https://openalex.org/W2586463315","doi":"https://doi.org/10.1145/3029375.3029377","title":"High-frequency Noise Attenuation of a Two-component System Responding to Short-pulse Input","display_name":"High-frequency Noise Attenuation of a Two-component System Responding to Short-pulse Input","publication_year":2016,"publication_date":"2016-12-19","ids":{"openalex":"https://openalex.org/W2586463315","doi":"https://doi.org/10.1145/3029375.3029377","mag":"2586463315"},"language":"en","primary_location":{"id":"doi:10.1145/3029375.3029377","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3029375.3029377","pdf_url":"http://dl.acm.org/ft_gateway.cfm?id=3029377&type=pdf","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 7th International Conference on Computational Systems-Biology and Bioinformatics","raw_type":"proceedings-article"},"type":"article","indexed_in":["crossref"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"http://dl.acm.org/ft_gateway.cfm?id=3029377&type=pdf","any_repository_has_fulltext":null},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5073121758","display_name":"Akifumi Nishida","orcid":"https://orcid.org/0000-0003-0296-6637"},"institutions":[{"id":"https://openalex.org/I114531698","display_name":"Tokyo Institute of Technology","ror":"https://ror.org/0112mx960","country_code":"JP","type":"education","lineage":["https://openalex.org/I114531698"]}],"countries":["JP"],"is_corresponding":true,"raw_author_name":"Akifumi Nishida","raw_affiliation_strings":["Tokyo Institute of Technology, Kanagawa, Japan"],"affiliations":[{"raw_affiliation_string":"Tokyo Institute of Technology, Kanagawa, Japan","institution_ids":["https://openalex.org/I114531698"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078013540","display_name":"Ryoji Sekine","orcid":null},"institutions":[{"id":"https://openalex.org/I4210129730","display_name":"RIKEN Center for Computational Science","ror":"https://ror.org/03r519674","country_code":"JP","type":"facility","lineage":["https://openalex.org/I4210110652","https://openalex.org/I4210129730"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Ryoji Sekine","raw_affiliation_strings":["RIKEN Quantitative Biology Center, Hyogo, Japan"],"affiliations":[{"raw_affiliation_string":"RIKEN Quantitative Biology Center, Hyogo, Japan","institution_ids":["https://openalex.org/I4210129730"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5022793717","display_name":"Daisuke Kiga","orcid":"https://orcid.org/0000-0003-3778-5887"},"institutions":[{"id":"https://openalex.org/I150744194","display_name":"Waseda University","ror":"https://ror.org/00ntfnx83","country_code":"JP","type":"education","lineage":["https://openalex.org/I150744194"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Daisuke Kiga","raw_affiliation_strings":["Waseda University, Tokyo, Japan"],"affiliations":[{"raw_affiliation_string":"Waseda University, Tokyo, Japan","institution_ids":["https://openalex.org/I150744194"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5103144139","display_name":"Masayuki Yamamura","orcid":"https://orcid.org/0000-0001-6113-3796"},"institutions":[{"id":"https://openalex.org/I114531698","display_name":"Tokyo Institute of Technology","ror":"https://ror.org/0112mx960","country_code":"JP","type":"education","lineage":["https://openalex.org/I114531698"]}],"countries":["JP"],"is_corresponding":false,"raw_author_name":"Masayuki Yamamura","raw_affiliation_strings":["Tokyo Institute of Technology, Kanagawa, Japan"],"affiliations":[{"raw_affiliation_string":"Tokyo Institute of Technology, Kanagawa, Japan","institution_ids":["https://openalex.org/I114531698"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5073121758"],"corresponding_institution_ids":["https://openalex.org/I114531698"],"apc_list":null,"apc_paid":null,"fwci":0.0,"has_fulltext":true,"cited_by_count":2,"citation_normalized_percentile":{"value":0.11345799,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":96},"biblio":{"volume":null,"issue":null,"first_page":"28","last_page":"35"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10621","display_name":"Gene Regulatory Network Analysis","score":0.998199999332428,"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":0.998199999332428,"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/T11268","display_name":"Light effects on plants","score":0.998199999332428,"subfield":{"id":"https://openalex.org/subfields/1110","display_name":"Plant Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12236","display_name":"Photoreceptor and optogenetics research","score":0.9962999820709229,"subfield":{"id":"https://openalex.org/subfields/2804","display_name":"Cellular and Molecular 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/cascade","display_name":"Cascade","score":0.8993445038795471},{"id":"https://openalex.org/keywords/noise","display_name":"Noise (video)","score":0.6308068037033081},{"id":"https://openalex.org/keywords/attenuation","display_name":"Attenuation","score":0.5493589639663696},{"id":"https://openalex.org/keywords/component","display_name":"Component (thermodynamics)","score":0.5103330016136169},{"id":"https://openalex.org/keywords/pulse","display_name":"Pulse (music)","score":0.4870319962501526},{"id":"https://openalex.org/keywords/upstream","display_name":"Upstream (networking)","score":0.4787523150444031},{"id":"https://openalex.org/keywords/modulation","display_name":"Modulation (music)","score":0.44886624813079834},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.4329819083213806},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.37799617648124695},{"id":"https://openalex.org/keywords/topology","display_name":"Topology (electrical circuits)","score":0.3391576409339905},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.3365769684314728},{"id":"https://openalex.org/keywords/electronic-engineering","display_name":"Electronic engineering","score":0.330968976020813},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.26727068424224854},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.20375072956085205},{"id":"https://openalex.org/keywords/telecommunications","display_name":"Telecommunications","score":0.20156586170196533},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.17188483476638794},{"id":"https://openalex.org/keywords/optics","display_name":"Optics","score":0.15792658925056458},{"id":"https://openalex.org/keywords/detector","display_name":"Detector","score":0.11703097820281982},{"id":"https://openalex.org/keywords/acoustics","display_name":"Acoustics","score":0.11542019248008728},{"id":"https://openalex.org/keywords/electrical-engineering","display_name":"Electrical engineering","score":0.11487478017807007}],"concepts":[{"id":"https://openalex.org/C34146451","wikidata":"https://www.wikidata.org/wiki/Q5048094","display_name":"Cascade","level":2,"score":0.8993445038795471},{"id":"https://openalex.org/C99498987","wikidata":"https://www.wikidata.org/wiki/Q2210247","display_name":"Noise (video)","level":3,"score":0.6308068037033081},{"id":"https://openalex.org/C184652730","wikidata":"https://www.wikidata.org/wiki/Q2357982","display_name":"Attenuation","level":2,"score":0.5493589639663696},{"id":"https://openalex.org/C168167062","wikidata":"https://www.wikidata.org/wiki/Q1117970","display_name":"Component (thermodynamics)","level":2,"score":0.5103330016136169},{"id":"https://openalex.org/C2780167933","wikidata":"https://www.wikidata.org/wiki/Q1550652","display_name":"Pulse (music)","level":3,"score":0.4870319962501526},{"id":"https://openalex.org/C191172861","wikidata":"https://www.wikidata.org/wiki/Q7899321","display_name":"Upstream (networking)","level":2,"score":0.4787523150444031},{"id":"https://openalex.org/C123079801","wikidata":"https://www.wikidata.org/wiki/Q750240","display_name":"Modulation (music)","level":2,"score":0.44886624813079834},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.4329819083213806},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.37799617648124695},{"id":"https://openalex.org/C184720557","wikidata":"https://www.wikidata.org/wiki/Q7825049","display_name":"Topology (electrical circuits)","level":2,"score":0.3391576409339905},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.3365769684314728},{"id":"https://openalex.org/C24326235","wikidata":"https://www.wikidata.org/wiki/Q126095","display_name":"Electronic engineering","level":1,"score":0.330968976020813},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.26727068424224854},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.20375072956085205},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.20156586170196533},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.17188483476638794},{"id":"https://openalex.org/C120665830","wikidata":"https://www.wikidata.org/wiki/Q14620","display_name":"Optics","level":1,"score":0.15792658925056458},{"id":"https://openalex.org/C94915269","wikidata":"https://www.wikidata.org/wiki/Q1834857","display_name":"Detector","level":2,"score":0.11703097820281982},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.11542019248008728},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.11487478017807007},{"id":"https://openalex.org/C97355855","wikidata":"https://www.wikidata.org/wiki/Q11473","display_name":"Thermodynamics","level":1,"score":0.0},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0},{"id":"https://openalex.org/C43617362","wikidata":"https://www.wikidata.org/wiki/Q170050","display_name":"Chromatography","level":1,"score":0.0}],"mesh":[],"locations_count":2,"locations":[{"id":"doi:10.1145/3029375.3029377","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3029375.3029377","pdf_url":"http://dl.acm.org/ft_gateway.cfm?id=3029377&type=pdf","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 7th International Conference on Computational Systems-Biology and Bioinformatics","raw_type":"proceedings-article"},{"id":"pmh:oai:t2r2.star.titech.ac.jp:50466447","is_oa":false,"landing_page_url":"http://t2r2.star.titech.ac.jp/cgi-bin/publicationinfo.cgi?q_publication_content_number=CTT100791121","pdf_url":null,"source":{"id":"https://openalex.org/S4377196385","display_name":"Tokyo Tech Research Repository (Tokyo Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I114531698","host_organization_name":"Tokyo Institute of Technology","host_organization_lineage":["https://openalex.org/I114531698"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Conference Paper"}],"best_oa_location":{"id":"doi:10.1145/3029375.3029377","is_oa":true,"landing_page_url":"https://doi.org/10.1145/3029375.3029377","pdf_url":"http://dl.acm.org/ft_gateway.cfm?id=3029377&type=pdf","source":null,"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Proceedings of the 7th International Conference on Computational Systems-Biology and Bioinformatics","raw_type":"proceedings-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320320909","display_name":"Keio University","ror":"https://ror.org/02kn6nx58"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2586463315.pdf","grobid_xml":"https://content.openalex.org/works/W2586463315.grobid-xml"},"referenced_works_count":42,"referenced_works":["https://openalex.org/W1584250038","https://openalex.org/W1599969036","https://openalex.org/W1645305843","https://openalex.org/W1974290880","https://openalex.org/W1975444080","https://openalex.org/W1978693516","https://openalex.org/W1991780313","https://openalex.org/W1994794118","https://openalex.org/W1998749764","https://openalex.org/W1999850786","https://openalex.org/W2000951555","https://openalex.org/W2021099440","https://openalex.org/W2033736814","https://openalex.org/W2053460598","https://openalex.org/W2057013484","https://openalex.org/W2061267510","https://openalex.org/W2068367947","https://openalex.org/W2069106205","https://openalex.org/W2092059846","https://openalex.org/W2092533253","https://openalex.org/W2094052071","https://openalex.org/W2098388823","https://openalex.org/W2099090468","https://openalex.org/W2102031413","https://openalex.org/W2102710619","https://openalex.org/W2106411386","https://openalex.org/W2107536713","https://openalex.org/W2108559568","https://openalex.org/W2111967267","https://openalex.org/W2120734860","https://openalex.org/W2120855545","https://openalex.org/W2125340100","https://openalex.org/W2126060951","https://openalex.org/W2132583277","https://openalex.org/W2134440848","https://openalex.org/W2135180152","https://openalex.org/W2140894616","https://openalex.org/W2155795927","https://openalex.org/W2170290922","https://openalex.org/W2170346972","https://openalex.org/W2317281054","https://openalex.org/W2319117160"],"related_works":["https://openalex.org/W3105298913","https://openalex.org/W4237236536","https://openalex.org/W2387506385","https://openalex.org/W2767722548","https://openalex.org/W2050335063","https://openalex.org/W2908451837","https://openalex.org/W1431753469","https://openalex.org/W2087482815","https://openalex.org/W2066227978","https://openalex.org/W2361892647"],"abstract_inverted_index":{"Among":[0],"the":[1,61,65,70,76,81,97,114,119,122,137,168,186],"various":[2],"biological":[3,12,182],"devices":[4,13,28],"developed":[5],"and":[6,38,84,113],"characterized":[7],"in":[8,29,162,191],"synthetic":[9],"biology,":[10],"light-sensing":[11,51],"can":[14,178],"serve":[15],"as":[16],"an":[17,87,144],"input--output":[18],"system":[19,53,68,83],"owing":[20],"to":[21,95,180],"their":[22],"light":[23,71],"modulation":[24],"property.":[25],"The":[26],"well-characterized":[27],"living":[30],"systems":[31,184],"are":[32],"useful":[33],"for":[34,121],"modulating":[35],"cellular":[36],"sensing":[37],"transducing":[39],"information.":[40],"In":[41,171],"this":[42,111],"study,":[43],"we":[44,135],"examined":[45],"short":[46],"pulse":[47,78],"responsiveness":[48],"of":[49,64,80,90,99,107,131,139,150,173,188],"a":[50,100,140,151],"two-component":[52],"(TCS),":[54],"Cph8-OmpR,":[55],"which":[56],"was":[57,93,126,165],"generated":[58],"by":[59,104],"replacing":[60],"sensor":[62,72],"domain":[63],"EnvZ-OmpR":[66],"osmoregulatory":[67],"with":[69,142,185],"Cph1.":[73],"We":[74],"varied":[75],"input":[77,88],"width":[79,89],"Cph8-OmpR":[82],"found":[85],"that":[86,118,130,155],"<1":[91],"s":[92],"sufficient":[94],"alter":[96],"accumulation":[98],"reporter":[101],"gene":[102,133],"upregulated":[103],"Cph8":[105],"phosphorylation":[106],"OmpR.":[108],"Based":[109],"on":[110],"result":[112],"mathematical":[115,148],"model":[116],"showing":[117],"timescale":[120],"upstream":[123],"Cph8-activity":[124],"transition":[125],"much":[127],"faster":[128],"than":[129],"downstream":[132],"expression,":[134],"evaluated":[136],"merit":[138],"TCS":[141,153],"such":[143],"unbalanced":[145],"cascade.":[146],"Our":[147],"simulation":[149],"cascade":[152,169,183],"suggests":[154],"high-frequency":[156],"noise":[157,174],"arising":[158],"from":[159],"fast":[160],"transitions":[161],"kinase":[163],"activity":[164],"attenuated":[166],"throughout":[167],"reaction.":[170],"terms":[172],"attenuation,":[175],"these":[176],"results":[177],"contribute":[179],"analyze":[181],"balance":[187],"reaction":[189],"rates":[190],"each":[192],"process.":[193]},"counts_by_year":[{"year":2023,"cited_by_count":2}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}