{"id":"https://openalex.org/W2018475069","doi":"https://doi.org/10.1186/1471-2105-11-346","title":"Predicting nucleosome positioning using a duration Hidden Markov Model","display_name":"Predicting nucleosome positioning using a duration Hidden Markov Model","publication_year":2010,"publication_date":"2010-06-24","ids":{"openalex":"https://openalex.org/W2018475069","doi":"https://doi.org/10.1186/1471-2105-11-346","mag":"2018475069","pmid":"https://pubmed.ncbi.nlm.nih.gov/20576140"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-11-346","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-346","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-346","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-346","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5100985315","display_name":"Liqun Xi","orcid":null},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Liqun Xi","raw_affiliation_strings":["Department of Statistics, Northwestern University, Evanston, IL 60208, USA","Department of Statistics, Northwestern University, Evanston, IL 60208, USA,#TAB#"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Statistics, Northwestern University, Evanston, IL 60208, USA","institution_ids":["https://openalex.org/I111979921"]},{"raw_affiliation_string":"Department of Statistics, Northwestern University, Evanston, IL 60208, USA,#TAB#","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009799883","display_name":"Yvonne Fondufe\u2010Mittendorf","orcid":"https://orcid.org/0000-0002-2551-9920"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Yvonne Fondufe-Mittendorf","raw_affiliation_strings":["Department of of Biochemistry, Molecular Biology and Cell Biology, Northwestern University, Evanston, IL, 60208, USA","Department of of Biochemistry, Molecular Biology and Cell Biology, Northwestern University, Evanston, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of of Biochemistry, Molecular Biology and Cell Biology, Northwestern University, Evanston, IL, 60208, USA","institution_ids":["https://openalex.org/I111979921"]},{"raw_affiliation_string":"Department of of Biochemistry, Molecular Biology and Cell Biology, Northwestern University, Evanston, USA","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001898831","display_name":"Lei Xia","orcid":"https://orcid.org/0000-0001-7726-968X"},"institutions":[{"id":"https://openalex.org/I4210119687","display_name":"Evanston Hospital","ror":"https://ror.org/02nh10f55","country_code":"US","type":"healthcare","lineage":["https://openalex.org/I1339509835","https://openalex.org/I40347166","https://openalex.org/I4210119687"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Lei Xia","raw_affiliation_strings":["Department of Electrical Engineering and Computer Science, Evanston, IL, 60208, USA","Department of Electrical Engineering and Computer Science, Evanston, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, Evanston, IL, 60208, USA","institution_ids":["https://openalex.org/I4210119687"]},{"raw_affiliation_string":"Department of Electrical Engineering and Computer Science, Evanston, USA","institution_ids":["https://openalex.org/I4210119687"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5091349266","display_name":"Jared Flatow","orcid":null},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Jared Flatow","raw_affiliation_strings":["Clinical and Translational Sciences Institute, Northwestern University, Chicago, 60611, USA","Clinical and Translational Sciences Institute, Northwestern University, Chicago, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Clinical and Translational Sciences Institute, Northwestern University, Chicago, 60611, USA","institution_ids":["https://openalex.org/I111979921"]},{"raw_affiliation_string":"Clinical and Translational Sciences Institute, Northwestern University, Chicago, USA","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5049261473","display_name":"Jonathan Widom","orcid":null},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jonathan Widom","raw_affiliation_strings":["Department of of Biochemistry, Molecular Biology and Cell Biology, Northwestern University, Evanston, IL, 60208, USA","Department of of Biochemistry, Molecular Biology and Cell Biology, Northwestern University, Evanston, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of of Biochemistry, Molecular Biology and Cell Biology, Northwestern University, Evanston, IL, 60208, USA","institution_ids":["https://openalex.org/I111979921"]},{"raw_affiliation_string":"Department of of Biochemistry, Molecular Biology and Cell Biology, Northwestern University, Evanston, USA","institution_ids":["https://openalex.org/I111979921"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100679498","display_name":"Jiping Wang","orcid":"https://orcid.org/0000-0002-7466-098X"},"institutions":[{"id":"https://openalex.org/I111979921","display_name":"Northwestern University","ror":"https://ror.org/000e0be47","country_code":"US","type":"education","lineage":["https://openalex.org/I111979921"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Ji-Ping Wang","raw_affiliation_strings":["Department of Statistics, Northwestern University, Evanston, IL, 60208, USA","Department of Statistics, Northwestern University, Evanston, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Statistics, Northwestern University, Evanston, IL, 60208, USA","institution_ids":["https://openalex.org/I111979921"]},{"raw_affiliation_string":"Department of Statistics, Northwestern University, Evanston, USA","institution_ids":["https://openalex.org/I111979921"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5049261473","https://openalex.org/A5100679498"],"corresponding_institution_ids":["https://openalex.org/I111979921"],"apc_list":{"value":2790,"currency":"USD","value_usd":2790},"apc_paid":{"value":2790,"currency":"USD","value_usd":2790},"fwci":3.2358,"has_fulltext":true,"cited_by_count":164,"citation_normalized_percentile":{"value":0.92472215,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":98,"max":100},"biblio":{"volume":"11","issue":"1","first_page":"346","last_page":"346"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9706000089645386,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9706000089645386,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.006300000008195639,"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/T13664","display_name":"Genome Rearrangement Algorithms","score":0.005799999926239252,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/nucleosome","display_name":"Nucleosome","score":0.8961516618728638},{"id":"https://openalex.org/keywords/linker-dna","display_name":"Linker DNA","score":0.5773887634277344},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5696438550949097},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5636268258094788},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5555751323699951},{"id":"https://openalex.org/keywords/hidden-markov-model","display_name":"Hidden Markov model","score":0.5352016091346741},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.45044034719467163},{"id":"https://openalex.org/keywords/sensitivity","display_name":"Sensitivity (control systems)","score":0.42354488372802734},{"id":"https://openalex.org/keywords/dna-microarray","display_name":"DNA microarray","score":0.4208954870700836},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3859668970108032},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.3470582962036133},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.3104860782623291},{"id":"https://openalex.org/keywords/histone","display_name":"Histone","score":0.21884113550186157},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.18430110812187195},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.14182955026626587},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.08263152837753296}],"concepts":[{"id":"https://openalex.org/C84772758","wikidata":"https://www.wikidata.org/wiki/Q271794","display_name":"Nucleosome","level":4,"score":0.8961516618728638},{"id":"https://openalex.org/C193646685","wikidata":"https://www.wikidata.org/wiki/Q1826830","display_name":"Linker DNA","level":5,"score":0.5773887634277344},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5696438550949097},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5636268258094788},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5555751323699951},{"id":"https://openalex.org/C23224414","wikidata":"https://www.wikidata.org/wiki/Q176769","display_name":"Hidden Markov model","level":2,"score":0.5352016091346741},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.45044034719467163},{"id":"https://openalex.org/C21200559","wikidata":"https://www.wikidata.org/wiki/Q7451068","display_name":"Sensitivity (control systems)","level":2,"score":0.42354488372802734},{"id":"https://openalex.org/C95371953","wikidata":"https://www.wikidata.org/wiki/Q591745","display_name":"DNA microarray","level":4,"score":0.4208954870700836},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3859668970108032},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.3470582962036133},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.3104860782623291},{"id":"https://openalex.org/C64927066","wikidata":"https://www.wikidata.org/wiki/Q36293","display_name":"Histone","level":3,"score":0.21884113550186157},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.18430110812187195},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.14182955026626587},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.08263152837753296},{"id":"https://openalex.org/C24326235","wikidata":"https://www.wikidata.org/wiki/Q126095","display_name":"Electronic engineering","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C150194340","wikidata":"https://www.wikidata.org/wiki/Q26972","display_name":"Gene expression","level":3,"score":0.0}],"mesh":[{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009707","descriptor_name":"Nucleosomes","qualifier_ui":"Q000648","qualifier_name":"ultrastructure","is_major_topic":false},{"descriptor_ui":"D009707","descriptor_name":"Nucleosomes","qualifier_ui":"Q000648","qualifier_name":"ultrastructure","is_major_topic":false},{"descriptor_ui":"D009707","descriptor_name":"Nucleosomes","qualifier_ui":"Q000648","qualifier_name":"ultrastructure","is_major_topic":false},{"descriptor_ui":"D009707","descriptor_name":"Nucleosomes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D009707","descriptor_name":"Nucleosomes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D009707","descriptor_name":"Nucleosomes","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D010363","descriptor_name":"Pattern Recognition, Automated","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/1471-2105-11-346","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-346","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-346","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:20576140","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20576140","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:adf337f4d5d443b5bdf6397acd819e02","is_oa":false,"landing_page_url":"https://doaj.org/article/adf337f4d5d443b5bdf6397acd819e02","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 11, Iss 1, p 346 (2010)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:2900280","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/2900280","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":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-11-346","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-11-346","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-11-346","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2950853548","display_name":null,"funder_award_id":"HHSN266200400042C","funder_id":"https://openalex.org/F4320332505","funder_display_name":"U.S. Public Health Service"},{"id":"https://openalex.org/G3296431394","display_name":null,"funder_award_id":"U54CA143869","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G8602575720","display_name":null,"funder_award_id":"U54CA143869","funder_id":"https://openalex.org/F4320337351","funder_display_name":"National Cancer Institute"}],"funders":[{"id":"https://openalex.org/F4320309475","display_name":"Northwestern University","ror":"https://ror.org/000e0be47"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332505","display_name":"U.S. Public Health Service","ror":"https://ror.org/05xf94514"},{"id":"https://openalex.org/F4320337351","display_name":"National Cancer Institute","ror":"https://ror.org/040gcmg81"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2018475069.pdf","grobid_xml":"https://content.openalex.org/works/W2018475069.grobid-xml"},"referenced_works_count":21,"referenced_works":["https://openalex.org/W1989819265","https://openalex.org/W1996270170","https://openalex.org/W2002439270","https://openalex.org/W2029873987","https://openalex.org/W2072152932","https://openalex.org/W2080748087","https://openalex.org/W2099309038","https://openalex.org/W2100295236","https://openalex.org/W2101399274","https://openalex.org/W2109157139","https://openalex.org/W2114752404","https://openalex.org/W2115219137","https://openalex.org/W2125838338","https://openalex.org/W2134314200","https://openalex.org/W2144123178","https://openalex.org/W2147734340","https://openalex.org/W2154109129","https://openalex.org/W2167764944","https://openalex.org/W2169951677","https://openalex.org/W4239340178","https://openalex.org/W4247418383"],"related_works":["https://openalex.org/W2062514148","https://openalex.org/W2063259914","https://openalex.org/W2104603433","https://openalex.org/W2024605487","https://openalex.org/W3118167814","https://openalex.org/W2004767437","https://openalex.org/W2092186136","https://openalex.org/W2910580209","https://openalex.org/W2062722074","https://openalex.org/W2509901635"],"abstract_inverted_index":{"BACKGROUND:":[0],"The":[1,81],"nucleosome":[2,38,48,56,71,82,140,157,163],"is":[3,19,34,110],"the":[4,17,77,124,137,156,160],"fundamental":[5],"packing":[6],"unit":[7],"of":[8,37,139,169],"DNAs":[9],"in":[10,102,112,182],"eukaryotic":[11],"cells.":[12],"Its":[13],"detailed":[14],"positioning":[15,39,49,72,141,164],"on":[16],"genome":[18,60],"closely":[20],"related":[21],"to":[22,98],"chromosome":[23],"functions.":[24],"Increasing":[25],"evidence":[26],"has":[27],"shown":[28],"that":[29,122],"genomic":[30,167],"DNA":[31,79],"sequence":[32],"itself":[33],"highly":[35],"predictive":[36],"genome-wide.":[40],"Therefore":[41],"a":[42,54,65,130,150],"fast":[43],"software":[44,106,152],"tool":[45,107,153],"for":[46,70,95,100,115,154,166],"predicting":[47,155],"can":[50],"help":[51],"understanding":[52],"how":[53],"genome's":[55],"organization":[57],"may":[58],"facilitate":[59],"function.":[61],"RESULTS:":[62],"We":[63],"present":[64],"duration":[66],"Hidden":[67],"Markov":[68],"model":[69],"prediction":[73,138],"by":[74],"explicitly":[75],"modeling":[76,123],"linker":[78,84,125],"length.":[80],"and":[83,128,144,159],"models":[85],"trained":[86],"from":[87],"yeast":[88],"data":[89],"are":[90],"re-scaled":[91],"when":[92],"making":[93],"predictions":[94],"other":[96],"species":[97],"adjust":[99],"differences":[101],"base":[103,131],"composition.":[104],"A":[105],"named":[108],"NuPoP":[109,148,178],"developed":[111],"three":[113],"formats":[114],"free":[116],"download.":[117],"CONCLUSIONS:":[118],"Simulation":[119],"studies":[120],"show":[121],"length":[126],"distribution":[127],"utilizing":[129],"composition":[132],"re-scaling":[133],"method":[134],"both":[135],"improve":[136],"regarding":[142],"sensitivity":[143],"false":[145],"discovery":[146],"rate.":[147],"provides":[149],"user-friendly":[151],"occupancy":[158],"most":[161],"probable":[162],"map":[165],"sequences":[168],"any":[170],"size.":[171],"When":[172],"compared":[173],"with":[174],"two":[175],"existing":[176],"methods,":[177],"shows":[179],"improved":[180],"performance":[181],"sensitivity.":[183]},"counts_by_year":[{"year":2026,"cited_by_count":6},{"year":2025,"cited_by_count":8},{"year":2024,"cited_by_count":10},{"year":2023,"cited_by_count":15},{"year":2022,"cited_by_count":7},{"year":2021,"cited_by_count":13},{"year":2020,"cited_by_count":7},{"year":2019,"cited_by_count":9},{"year":2018,"cited_by_count":12},{"year":2017,"cited_by_count":13},{"year":2016,"cited_by_count":10},{"year":2015,"cited_by_count":8},{"year":2014,"cited_by_count":20},{"year":2013,"cited_by_count":7},{"year":2012,"cited_by_count":13}],"updated_date":"2026-07-23T08:03:31.855105","created_date":"2025-10-10T00:00:00"}