{"id":"https://openalex.org/W1833384848","doi":"https://doi.org/10.1186/1752-0509-9-s3-s2","title":"Single-molecule modeling of mRNA degradation by miRNA: Lessons from data","display_name":"Single-molecule modeling of mRNA degradation by miRNA: Lessons from data","publication_year":2015,"publication_date":"2015-06-01","ids":{"openalex":"https://openalex.org/W1833384848","doi":"https://doi.org/10.1186/1752-0509-9-s3-s2","mag":"1833384848","pmid":"https://pubmed.ncbi.nlm.nih.gov/26050661","pmcid":"https://www.ncbi.nlm.nih.gov/pmc/articles/4464216"},"language":"en","primary_location":{"is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-9-s3-s2","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-9-S3-S2","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319965","https://openalex.org/P4310319900"],"host_organization_lineage_names":["Springer Nature","Springer Science+Business Media"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true},"type":"article","type_crossref":"journal-article","indexed_in":["arxiv","crossref","datacite","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-9-S3-S2","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5054329050","display_name":"Celine Sin","orcid":"https://orcid.org/0000-0002-4975-4618"},"institutions":[{"id":"https://openalex.org/I149899117","display_name":"Max Planck Society","ror":"https://ror.org/01hhn8329","country_code":"DE","type":"nonprofit","lineage":["https://openalex.org/I149899117"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Celine Sin","raw_affiliation_strings":["Department of Theory and Bio-Systems, Max Planck Institute of Colloids and Interfaces, Science Park Golm, Potsdam, Germany."],"affiliations":[{"raw_affiliation_string":"Department of Theory and Bio-Systems, Max Planck Institute of Colloids and Interfaces, Science Park Golm, Potsdam, Germany.","institution_ids":["https://openalex.org/I149899117"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000327522","display_name":"Davide Chiarugi","orcid":"https://orcid.org/0000-0003-2752-3189"},"institutions":[{"id":"https://openalex.org/I149899117","display_name":"Max Planck Society","ror":"https://ror.org/01hhn8329","country_code":"DE","type":"nonprofit","lineage":["https://openalex.org/I149899117"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Davide Chiarugi","raw_affiliation_strings":["Department of Theory and Bio-Systems, Max Planck Institute of Colloids and Interfaces, Science Park Golm, Potsdam, Germany."],"affiliations":[{"raw_affiliation_string":"Department of Theory and Bio-Systems, Max Planck Institute of Colloids and Interfaces, Science Park Golm, Potsdam, Germany.","institution_ids":["https://openalex.org/I149899117"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5036811597","display_name":"Angelo Valleriani","orcid":"https://orcid.org/0000-0001-6591-5824"},"institutions":[{"id":"https://openalex.org/I149899117","display_name":"Max Planck Society","ror":"https://ror.org/01hhn8329","country_code":"DE","type":"nonprofit","lineage":["https://openalex.org/I149899117"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Angelo Valleriani","raw_affiliation_strings":["Department of Theory and Bio-Systems, Max Planck Institute of Colloids and Interfaces, Science Park Golm, Potsdam, Germany."],"affiliations":[{"raw_affiliation_string":"Department of Theory and Bio-Systems, Max Planck Institute of Colloids and Interfaces, Science Park Golm, Potsdam, Germany.","institution_ids":["https://openalex.org/I149899117"]}]}],"institution_assertions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":null,"apc_paid":null,"fwci":0.506,"has_fulltext":true,"fulltext_origin":"pdf","cited_by_count":8,"citation_normalized_percentile":{"value":0.772241,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":84,"max":85},"biblio":{"volume":"9","issue":"S3","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"primary_topic":{"id":"https://openalex.org/T10604","display_name":"RNA Research and Splicing","score":0.9999,"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/T10604","display_name":"RNA Research and Splicing","score":0.9999,"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/T11482","display_name":"RNA modifications and cancer","score":0.9983,"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/T10725","display_name":"RNA Interference and Gene Delivery","score":0.998,"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/degradation","display_name":"Degradation","score":0.44728252}],"concepts":[{"id":"https://openalex.org/C105580179","wikidata":"https://www.wikidata.org/wiki/Q188928","display_name":"Messenger RNA","level":3,"score":0.71691746},{"id":"https://openalex.org/C145059251","wikidata":"https://www.wikidata.org/wiki/Q310899","display_name":"microRNA","level":3,"score":0.6615147},{"id":"https://openalex.org/C119056186","wikidata":"https://www.wikidata.org/wiki/Q1431332","display_name":"Gene silencing","level":3,"score":0.6349758},{"id":"https://openalex.org/C95444343","wikidata":"https://www.wikidata.org/wiki/Q7141","display_name":"Cell biology","level":1,"score":0.5179578},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4620774},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.46147084},{"id":"https://openalex.org/C2779679103","wikidata":"https://www.wikidata.org/wiki/Q5251805","display_name":"Degradation (telecommunications)","level":2,"score":0.44728252},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.34380525},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.22937062},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.20624071},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.13758016},{"id":"https://openalex.org/C76155785","wikidata":"https://www.wikidata.org/wiki/Q418","display_name":"Telecommunications","level":1,"score":0.120690286}],"mesh":[{"descriptor_ui":"D002352","descriptor_name":"Carrier Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D029721","descriptor_name":"Drosophila Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D008954","descriptor_name":"Models, Biological","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020871","descriptor_name":"RNA Stability","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":true},{"descriptor_ui":"D013597","descriptor_name":"Systems Analysis","qualifier_ui":"","qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002352","descriptor_name":"Carrier Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D002352","descriptor_name":"Carrier Proteins","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002460","descriptor_name":"Cell Line","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D029721","descriptor_name":"Drosophila Proteins","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D029721","descriptor_name":"Drosophila Proteins","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D055785","descriptor_name":"Gene Knockdown Techniques","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D035683","descriptor_name":"MicroRNAs","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D020871","descriptor_name":"RNA Stability","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012333","descriptor_name":"RNA, Messenger","qualifier_ui":"","qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016601","descriptor_name":"RNA-Binding Proteins","qualifier_ui":"","qualifier_name":null,"is_major_topic":false}],"locations_count":8,"locations":[{"is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-9-s3-s2","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-9-S3-S2","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319965","https://openalex.org/P4310319900"],"host_organization_lineage_names":["Springer Nature","Springer Science+Business Media"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://arxiv.org/abs/1410.5324","pdf_url":"https://arxiv.org/pdf/1410.5324","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":["Cornell University"],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false},{"is_oa":true,"landing_page_url":"https://europepmc.org/articles/pmc4464216","pdf_url":"https://europepmc.org/articles/pmc4464216?pdf=render","source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"host_organization_lineage_names":["European Bioinformatics Institute"],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://hdl.handle.net/11858/00-001M-0000-0028-5666-A","pdf_url":"https://pure.mpg.de/pubman/item/item_2191456_6/component/file_2191460/2191456.pdf","source":{"id":"https://openalex.org/S4306400655","display_name":"MPG.PuRe (Max Planck Society)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I149899117","host_organization_name":"Max Planck Society","host_organization_lineage":["https://openalex.org/I149899117"],"host_organization_lineage_names":["Max Planck Society"],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4464216","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"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":["National Institutes of Health"],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true},{"is_oa":true,"landing_page_url":null,"pdf_url":"https://arxiv.org/pdf/1410.5324.pdf","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I205783295","host_organization_name":"Cornell University","host_organization_lineage":["https://openalex.org/I205783295"],"host_organization_lineage_names":["Cornell University"],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false},{"is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26050661","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":["National Institutes of Health"],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":false},{"is_oa":false,"landing_page_url":"https://api.datacite.org/dois/10.48550/arxiv.1410.5324","pdf_url":null,"source":{"id":"https://openalex.org/S4393179698","display_name":"DataCite API","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210145204","host_organization_name":"DataCite","host_organization_lineage":["https://openalex.org/I4210145204"],"host_organization_lineage_names":["DataCite"],"type":"metadata"},"license":null,"license_id":null,"version":null}],"best_oa_location":{"is_oa":true,"landing_page_url":"https://doi.org/10.1186/1752-0509-9-s3-s2","pdf_url":"https://bmcsystbiol.biomedcentral.com/counter/pdf/10.1186/1752-0509-9-S3-S2","source":{"id":"https://openalex.org/S92363890","display_name":"BMC Systems Biology","issn_l":"1752-0509","issn":["1752-0509"],"is_oa":true,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310319900","host_organization_name":"Springer Science+Business Media","host_organization_lineage":["https://openalex.org/P4310319965","https://openalex.org/P4310319900"],"host_organization_lineage_names":["Springer Nature","Springer Science+Business Media"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true},"sustainable_development_goals":[],"grants":[],"datasets":[],"versions":["https://openalex.org/W1833384848","https://openalex.org/W3103082348"],"referenced_works_count":25,"referenced_works":["https://openalex.org/W1965347187","https://openalex.org/W1978078758","https://openalex.org/W1979588314","https://openalex.org/W1988764308","https://openalex.org/W1989097197","https://openalex.org/W1993806666","https://openalex.org/W1999815828","https://openalex.org/W2005300549","https://openalex.org/W2010461414","https://openalex.org/W2011388017","https://openalex.org/W2037060357","https://openalex.org/W2039357236","https://openalex.org/W2046314136","https://openalex.org/W2062753431","https://openalex.org/W2074915514","https://openalex.org/W2089001345","https://openalex.org/W2097455031","https://openalex.org/W2102876017","https://openalex.org/W2106645674","https://openalex.org/W2108888759","https://openalex.org/W2124772904","https://openalex.org/W2130687298","https://openalex.org/W2150499038","https://openalex.org/W2157876956","https://openalex.org/W2158705876"],"related_works":["https://openalex.org/W4392896533","https://openalex.org/W4241694095","https://openalex.org/W3151405604","https://openalex.org/W2793648706","https://openalex.org/W2737319532","https://openalex.org/W2565797512","https://openalex.org/W2330252996","https://openalex.org/W2062945643","https://openalex.org/W2050308539","https://openalex.org/W2026936876"],"abstract_inverted_index":{"Recent":[0],"experimental":[1,65,175],"results":[2],"on":[3,8,116],"the":[4,9,30,43,58,64,72,75,79,88,98,105,112,122,133,145,148,167,171],"effect":[5],"of":[6,11,57,63,74,97],"miRNA":[7,106],"decay":[10,66],"its":[12,37],"target":[13,38,59,99,134,146],"mRNA":[14,39,100,149],"have":[15],"been":[16],"analyzed":[17],"against":[18],"a":[19,156],"previously":[20,89],"hypothesized":[21,90],"single":[22,80],"molecule":[23,81],"degradation":[24,76],"pathway.":[25,158],"According":[26],"to":[27,51,70,132,144,177],"that":[28,86,125,139],"hypothesis,":[29],"silencing":[31],"complex":[32],"(miRISC)":[33],"first":[34],"interacts":[35,127],"with":[36,47,111,128],"and":[40,49,169],"then":[41],"recruits":[42],"protein":[44],"complexes":[45],"associated":[46],"NOT1":[48,126],"PAN3":[50],"trigger":[52],"deadenylation":[53],"(and":[54],"subsequent":[55],"degradation)":[56],"mRNA.":[60,135],"Our":[61],"analysis":[62],"patterns":[67],"allowed":[68],"us":[69],"refine":[71],"structure":[73],"pathways":[77],"at":[78],"level.":[82],"Surprisingly,":[83],"we":[84,120,137],"found":[85],"if":[87],"network":[91],"was":[92],"correct,":[93],"only":[94],"about":[95],"7%":[96],"would":[101],"be":[102],"regulated":[103],"by":[104],"mechanism,":[107],"which":[108],"is":[109,150],"inconsistent":[110],"available":[113],"knowledge.":[114],"Based":[115],"systematic":[117],"data":[118,168],"analysis,":[119],"propose":[121],"alternative":[123],"hypothesis":[124],"miRISC":[129,141],"before":[130],"binding":[131],"Moreover,":[136],"show":[138],"when":[140],"binds":[142],"alone":[143],"mRNA,":[147],"degraded":[151],"more":[152],"slowly,":[153],"probably":[154],"through":[155],"deadenylation-independent":[157],"The":[159],"new":[160,174,179],"biochemical":[161],"pathway":[162],"proposed":[163],"here":[164],"both":[165],"fits":[166],"paves":[170],"way":[172],"for":[173],"work":[176],"identify":[178],"interactions.":[180]},"cited_by_api_url":"https://api.openalex.org/works?filter=cites:W1833384848","counts_by_year":[{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":1},{"year":2015,"cited_by_count":1}],"updated_date":"2025-01-08T14:33:45.650084","created_date":"2016-06-24"}