{"id":"https://openalex.org/W2909741796","doi":"https://doi.org/10.1007/978-3-030-28042-0_8","title":"A Hybrid HMM Approach for the Dynamics of DNA Methylation","display_name":"A Hybrid HMM Approach for the Dynamics of DNA Methylation","publication_year":2019,"publication_date":"2019-01-01","ids":{"openalex":"https://openalex.org/W2909741796","doi":"https://doi.org/10.1007/978-3-030-28042-0_8","mag":"2909741796"},"language":"en","primary_location":{"id":"doi:10.1007/978-3-030-28042-0_8","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-030-28042-0_8","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"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/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},"type":"conference-paper","indexed_in":["arxiv","crossref","datacite"],"open_access":{"is_oa":true,"oa_status":"green","oa_url":"https://arxiv.org/pdf/1901.06286","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5023823866","display_name":"Charalampos Kyriakopoulos","orcid":null},"institutions":[{"id":"https://openalex.org/I91712215","display_name":"Saarland University","ror":"https://ror.org/01jdpyv68","country_code":"DE","type":"education","lineage":["https://openalex.org/I91712215"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Charalampos Kyriakopoulos","raw_affiliation_strings":["Department of Computer Science, Saarland University, Saarbr\u00fccken, Germany","Department of Computer Science, Saarland University Saarbr\u00fccken, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Saarland University, Saarbr\u00fccken, Germany","institution_ids":["https://openalex.org/I91712215"]},{"raw_affiliation_string":"Department of Computer Science, Saarland University Saarbr\u00fccken, Germany","institution_ids":["https://openalex.org/I91712215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000803746","display_name":"Pascal Giehr","orcid":"https://orcid.org/0000-0001-6693-2175"},"institutions":[{"id":"https://openalex.org/I91712215","display_name":"Saarland University","ror":"https://ror.org/01jdpyv68","country_code":"DE","type":"education","lineage":["https://openalex.org/I91712215"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Pascal Giehr","raw_affiliation_strings":["Department of Biological Sciences, Saarland University, Saarbr\u00fccken, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, Saarland University, Saarbr\u00fccken, Germany","institution_ids":["https://openalex.org/I91712215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5012780830","display_name":"Alexander L\u00fcck","orcid":"https://orcid.org/0000-0003-1736-5105"},"institutions":[{"id":"https://openalex.org/I91712215","display_name":"Saarland University","ror":"https://ror.org/01jdpyv68","country_code":"DE","type":"education","lineage":["https://openalex.org/I91712215"]}],"countries":["DE"],"is_corresponding":true,"raw_author_name":"Alexander L\u00fcck","raw_affiliation_strings":["Department of Computer Science, Saarland University, Saarbr\u00fccken, Germany","Department of Computer Science, Saarland University Saarbr\u00fccken, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Saarland University, Saarbr\u00fccken, Germany","institution_ids":["https://openalex.org/I91712215"]},{"raw_affiliation_string":"Department of Computer Science, Saarland University Saarbr\u00fccken, Germany","institution_ids":["https://openalex.org/I91712215"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5057277193","display_name":"J\u00f6rn Walter","orcid":"https://orcid.org/0000-0003-0563-7417"},"institutions":[{"id":"https://openalex.org/I91712215","display_name":"Saarland University","ror":"https://ror.org/01jdpyv68","country_code":"DE","type":"education","lineage":["https://openalex.org/I91712215"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"J\u00f6rn Walter","raw_affiliation_strings":["Department of Biological Sciences, Saarland University, Saarbr\u00fccken, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Biological Sciences, Saarland University, Saarbr\u00fccken, Germany","institution_ids":["https://openalex.org/I91712215"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5089228948","display_name":"Verena Wolf","orcid":"https://orcid.org/0000-0001-8460-6007"},"institutions":[{"id":"https://openalex.org/I91712215","display_name":"Saarland University","ror":"https://ror.org/01jdpyv68","country_code":"DE","type":"education","lineage":["https://openalex.org/I91712215"]}],"countries":["DE"],"is_corresponding":false,"raw_author_name":"Verena Wolf","raw_affiliation_strings":["Department of Computer Science, Saarland University, Saarbr\u00fccken, Germany","Department of Computer Science, Saarland University Saarbr\u00fccken, Germany"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science, Saarland University, Saarbr\u00fccken, Germany","institution_ids":["https://openalex.org/I91712215"]},{"raw_affiliation_string":"Department of Computer Science, Saarland University Saarbr\u00fccken, Germany","institution_ids":["https://openalex.org/I91712215"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5012780830"],"corresponding_institution_ids":["https://openalex.org/I91712215"],"apc_list":{"value":5000,"currency":"EUR","value_usd":5392},"apc_paid":null,"fwci":0.8366,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.72427885,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":null,"issue":null,"first_page":"117","last_page":"131"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10269","display_name":"Epigenetics and DNA Methylation","score":0.9998999834060669,"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/T10269","display_name":"Epigenetics and DNA Methylation","score":0.9998999834060669,"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/dna-methylation","display_name":"DNA methylation","score":0.8459434509277344},{"id":"https://openalex.org/keywords/epigenetics","display_name":"Epigenetics","score":0.7732491493225098},{"id":"https://openalex.org/keywords/methylation","display_name":"Methylation","score":0.7397732138633728},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5778708457946777},{"id":"https://openalex.org/keywords/demethylation","display_name":"Demethylation","score":0.5778287649154663},{"id":"https://openalex.org/keywords/dna-demethylation","display_name":"DNA demethylation","score":0.5404629707336426},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.47558796405792236},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.47319313883781433},{"id":"https://openalex.org/keywords/hidden-markov-model","display_name":"Hidden Markov model","score":0.44538676738739014},{"id":"https://openalex.org/keywords/epigenomics","display_name":"Epigenomics","score":0.41748321056365967},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.40887731313705444},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.2589747905731201},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.21720758080482483},{"id":"https://openalex.org/keywords/gene-expression","display_name":"Gene expression","score":0.15053871273994446},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.09947115182876587}],"concepts":[{"id":"https://openalex.org/C190727270","wikidata":"https://www.wikidata.org/wiki/Q874745","display_name":"DNA methylation","level":4,"score":0.8459434509277344},{"id":"https://openalex.org/C41091548","wikidata":"https://www.wikidata.org/wiki/Q26939","display_name":"Epigenetics","level":3,"score":0.7732491493225098},{"id":"https://openalex.org/C33288867","wikidata":"https://www.wikidata.org/wiki/Q518328","display_name":"Methylation","level":3,"score":0.7397732138633728},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5778708457946777},{"id":"https://openalex.org/C202199734","wikidata":"https://www.wikidata.org/wiki/Q900386","display_name":"Demethylation","level":5,"score":0.5778287649154663},{"id":"https://openalex.org/C16824249","wikidata":"https://www.wikidata.org/wiki/Q5205753","display_name":"DNA demethylation","level":5,"score":0.5404629707336426},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.47558796405792236},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.47319313883781433},{"id":"https://openalex.org/C23224414","wikidata":"https://www.wikidata.org/wiki/Q176769","display_name":"Hidden Markov model","level":2,"score":0.44538676738739014},{"id":"https://openalex.org/C121912465","wikidata":"https://www.wikidata.org/wiki/Q3589153","display_name":"Epigenomics","level":5,"score":0.41748321056365967},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.40887731313705444},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.2589747905731201},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.21720758080482483},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.15053871273994446},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.09947115182876587}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.1007/978-3-030-28042-0_8","is_oa":false,"landing_page_url":"https://doi.org/10.1007/978-3-030-28042-0_8","pdf_url":null,"source":{"id":"https://openalex.org/S106296714","display_name":"Lecture notes in computer science","issn_l":"0302-9743","issn":["0302-9743","1611-3349"],"is_oa":false,"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/P4310319900","https://openalex.org/P4310319965"],"host_organization_lineage_names":["Springer Science+Business Media","Springer Nature"],"type":"book series"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Lecture Notes in Computer Science","raw_type":"book-chapter"},{"id":"pmh:oai:arXiv.org:1901.06286","is_oa":true,"landing_page_url":"http://arxiv.org/abs/1901.06286","pdf_url":"https://arxiv.org/pdf/1901.06286","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":"2331-8422","issn":["2331-8422"],"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":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":null},{"id":"mag:2909741796","is_oa":true,"landing_page_url":"https://arxiv.org/pdf/1901.06286.pdf","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":"2331-8422","issn":["2331-8422"],"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":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"arXiv (Cornell University)","raw_type":null},{"id":"doi:10.48550/arxiv.1901.06286","is_oa":true,"landing_page_url":"https://doi.org/10.48550/arxiv.1901.06286","pdf_url":null,"source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":"2331-8422","issn":["2331-8422"],"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":[],"type":"repository"},"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"Preprint"},{"id":"doi:10.22028/d291-31085","is_oa":true,"landing_page_url":"https://doi.org/10.22028/d291-31085","pdf_url":null,"source":null,"license":null,"license_id":null,"version":null,"is_accepted":false,"is_published":null,"raw_source_name":null,"raw_type":"Collection"}],"best_oa_location":{"id":"pmh:oai:arXiv.org:1901.06286","is_oa":true,"landing_page_url":"http://arxiv.org/abs/1901.06286","pdf_url":"https://arxiv.org/pdf/1901.06286","source":{"id":"https://openalex.org/S4306400194","display_name":"arXiv (Cornell University)","issn_l":"2331-8422","issn":["2331-8422"],"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":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":null},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":30,"referenced_works":["https://openalex.org/W1577875429","https://openalex.org/W1994840217","https://openalex.org/W1997453048","https://openalex.org/W1998517881","https://openalex.org/W2006821116","https://openalex.org/W2008563981","https://openalex.org/W2020767030","https://openalex.org/W2026255880","https://openalex.org/W2032700279","https://openalex.org/W2038449573","https://openalex.org/W2038722690","https://openalex.org/W2046812959","https://openalex.org/W2060446375","https://openalex.org/W2067342226","https://openalex.org/W2077249217","https://openalex.org/W2082550660","https://openalex.org/W2108664872","https://openalex.org/W2114599216","https://openalex.org/W2129270269","https://openalex.org/W2149206894","https://openalex.org/W2152451432","https://openalex.org/W2167010568","https://openalex.org/W2168980816","https://openalex.org/W2397653539","https://openalex.org/W2407888728","https://openalex.org/W2415162448","https://openalex.org/W2771520050","https://openalex.org/W2809198912","https://openalex.org/W2962711911","https://openalex.org/W2962727706"],"related_works":["https://openalex.org/W2966562983","https://openalex.org/W2962727706","https://openalex.org/W2941102104","https://openalex.org/W2339845263","https://openalex.org/W2953337467","https://openalex.org/W3197163730","https://openalex.org/W2066397696","https://openalex.org/W1665076412","https://openalex.org/W2914906153","https://openalex.org/W2029962700","https://openalex.org/W2994944922","https://openalex.org/W3138019058","https://openalex.org/W3133298504","https://openalex.org/W1943124015","https://openalex.org/W2739052795","https://openalex.org/W2588538443","https://openalex.org/W2625783081","https://openalex.org/W2139565489","https://openalex.org/W2072288967","https://openalex.org/W2586406722"],"abstract_inverted_index":{"The":[0],"understanding":[1],"of":[2,64,92,149],"mechanisms":[3,114],"that":[4,115],"control":[5],"epigenetic":[6],"changes":[7,42,58,144],"is":[8],"an":[9],"important":[10],"research":[11],"area":[12],"in":[13,24,49,77],"modern":[14],"functional":[15],"biology.":[16],"Epigenetic":[17],"modifications":[18],"such":[19],"as":[20],"DNA":[21,32,56,156],"methylation":[22,33,57,70,93,143,157],"are":[23,59],"general":[25],"very":[26],"stable":[27],"over":[28,43,96],"many":[29],"cell":[30,119],"divisions.":[31],"can":[34],"however":[35],"be":[36],"subject":[37],"to":[38,88,155],"specific":[39],"and":[40,67,94,121,145,158],"fast":[41],"a":[44,62,83],"short":[45],"time":[46,98,127],"scale":[47],"even":[48],"non-dividing":[50],"(i.e.":[51,112],"not-replicating)":[52],"cells.":[53],"Such":[54],"dynamic":[55],"caused":[60],"by":[61],"combination":[63],"active":[65],"demethylation":[66,95],"de":[68],"novo":[69],"processes":[71],"which":[72],"have":[73],"not":[74],"been":[75],"investigated":[76],"integrated":[78],"models.":[79],"Here":[80],"we":[81],"present":[82],"hybrid":[84,101],"(hidden)":[85],"Markov":[86],"model":[87,102,132],"describe":[89],"the":[90,147,150],"cycle":[91],"(short)":[97],"scales.":[99],"Our":[100],"decribes":[103],"several":[104],"molecular":[105],"events":[106,123],"either":[107],"happening":[108],"at":[109,125],"deterministic":[110],"points":[111],"describing":[113],"occur":[116],"only":[117],"during":[118],"division)":[120],"other":[122],"occurring":[124],"random":[126],"points.":[128],"We":[129,141],"test":[130],"our":[131],"on":[133],"mouse":[134],"embryonic":[135],"stem":[136],"cells":[137],"using":[138],"time-resolved":[139],"data.":[140],"predict":[142],"estimate":[146],"efficiencies":[148],"different":[151],"modification":[152],"steps":[153],"related":[154],"demethylation.":[159]},"counts_by_year":[{"year":2019,"cited_by_count":1}],"updated_date":"2026-08-04T08:18:43.703281","created_date":"2025-10-10T00:00:00"}
