{"id":"https://openalex.org/W2264592275","doi":"https://doi.org/10.1093/bib/bbv086","title":"Nucleosome positioning: resources and tools online","display_name":"Nucleosome positioning: resources and tools online","publication_year":2015,"publication_date":"2015-09-26","ids":{"openalex":"https://openalex.org/W2264592275","doi":"https://doi.org/10.1093/bib/bbv086","mag":"2264592275","pmid":"https://pubmed.ncbi.nlm.nih.gov/26411474"},"language":"en","primary_location":{"id":"doi:10.1093/bib/bbv086","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbv086","pdf_url":"https://academic.oup.com/bib/article-pdf/17/5/745/6686891/bbv086.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["arxiv","crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bib/article-pdf/17/5/745/6686891/bbv086.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5048504577","display_name":"Vladimir B. Teif","orcid":"https://orcid.org/0000-0002-5931-7534"},"institutions":[{"id":"https://openalex.org/I110002522","display_name":"University of Essex","ror":"https://ror.org/02nkf1q06","country_code":"GB","type":"education","lineage":["https://openalex.org/I110002522"]}],"countries":["GB"],"is_corresponding":true,"raw_author_name":"Vladimir B. Teif","raw_affiliation_strings":["School of Biological Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, UK"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biological Sciences, University of Essex, Wivenhoe Park, Colchester CO4 3SQ, UK","institution_ids":["https://openalex.org/I110002522"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5048504577"],"corresponding_institution_ids":["https://openalex.org/I110002522"],"apc_list":{"value":4011,"currency":"USD","value_usd":4011},"apc_paid":null,"fwci":3.1675,"has_fulltext":false,"cited_by_count":73,"citation_normalized_percentile":{"value":0.92648686,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":96,"max":99},"biblio":{"volume":"17","issue":"5","first_page":"745","last_page":"757"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","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/T10222","display_name":"Genomics and Chromatin Dynamics","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"}},{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9987000226974487,"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/T10434","display_name":"Chromosomal and Genetic Variations","score":0.9943000078201294,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/nucleosome","display_name":"Nucleosome","score":0.9357914328575134},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6198837161064148},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5693908929824829},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5633735060691833},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.46902576088905334},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.34161531925201416},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.3339862823486328},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3082205355167389},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.25857895612716675},{"id":"https://openalex.org/keywords/chromatin","display_name":"Chromatin","score":0.242573082447052},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.23966845870018005},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.16176137328147888}],"concepts":[{"id":"https://openalex.org/C84772758","wikidata":"https://www.wikidata.org/wiki/Q271794","display_name":"Nucleosome","level":4,"score":0.9357914328575134},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6198837161064148},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5693908929824829},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5633735060691833},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.46902576088905334},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.34161531925201416},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.3339862823486328},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3082205355167389},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.25857895612716675},{"id":"https://openalex.org/C83640560","wikidata":"https://www.wikidata.org/wiki/Q180951","display_name":"Chromatin","level":3,"score":0.242573082447052},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.23966845870018005},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.16176137328147888}],"mesh":[{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009707","descriptor_name":"Nucleosomes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009707","descriptor_name":"Nucleosomes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009707","descriptor_name":"Nucleosomes","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011401","descriptor_name":"Promoter Regions, Genetic","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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bib/bbv086","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbv086","pdf_url":"https://academic.oup.com/bib/article-pdf/17/5/745/6686891/bbv086.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:26411474","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26411474","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":"Briefings in bioinformatics","raw_type":null},{"id":"pmh:oai:arXiv.org:1508.06916","is_oa":true,"landing_page_url":"http://arxiv.org/abs/1508.06916","pdf_url":"https://arxiv.org/pdf/1508.06916","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":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"text"},{"id":"pmh:oai:CiteSeerX.psu:10.1.1.726.8432","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.726.8432","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://generegulation.info/teifpdf/_Teif2015_nucleosome_positioning_online_v44.pdf","raw_type":"text"},{"id":"pmh:oai:open-archive.highwire.org:bib:17/5/745","is_oa":false,"landing_page_url":"http://bib.oxfordjournals.org/cgi/content/short/17/5/745","pdf_url":null,"source":{"id":"https://openalex.org/S4406923041","display_name":"HighWire Press Open Archive","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":"","raw_type":"TEXT"}],"best_oa_location":{"id":"doi:10.1093/bib/bbv086","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bib/bbv086","pdf_url":"https://academic.oup.com/bib/article-pdf/17/5/745/6686891/bbv086.pdf","source":{"id":"https://openalex.org/S91767247","display_name":"Briefings in Bioinformatics","issn_l":"1467-5463","issn":["1467-5463","1477-4054"],"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":"Briefings in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2264592275.pdf"},"referenced_works_count":191,"referenced_works":["https://openalex.org/W1484411122","https://openalex.org/W1525192260","https://openalex.org/W1531821806","https://openalex.org/W1539997330","https://openalex.org/W1549155795","https://openalex.org/W1620750937","https://openalex.org/W1705168361","https://openalex.org/W1838745032","https://openalex.org/W1899443405","https://openalex.org/W1937291806","https://openalex.org/W1967163877","https://openalex.org/W1967875119","https://openalex.org/W1969614302","https://openalex.org/W1970225064","https://openalex.org/W1971451591","https://openalex.org/W1973785602","https://openalex.org/W1973850164","https://openalex.org/W1974353685","https://openalex.org/W1979620025","https://openalex.org/W1980579432","https://openalex.org/W1980971292","https://openalex.org/W1981516407","https://openalex.org/W1982160231","https://openalex.org/W1983853806","https://openalex.org/W1984325098","https://openalex.org/W1987735941","https://openalex.org/W1989552105","https://openalex.org/W1991007440","https://openalex.org/W1992005588","https://openalex.org/W1993502678","https://openalex.org/W1994760752","https://openalex.org/W1995495619","https://openalex.org/W1996413778","https://openalex.org/W1996813139","https://openalex.org/W1998585977","https://openalex.org/W1998697112","https://openalex.org/W2000142302","https://openalex.org/W2002197756","https://openalex.org/W2004469916","https://openalex.org/W2005282195","https://openalex.org/W2005450410","https://openalex.org/W2008389971","https://openalex.org/W2008748285","https://openalex.org/W2010461536","https://openalex.org/W2013340257","https://openalex.org/W2014002637","https://openalex.org/W2014677321","https://openalex.org/W2016597274","https://openalex.org/W2016753164","https://openalex.org/W2018475069","https://openalex.org/W2020049638","https://openalex.org/W2020270674","https://openalex.org/W2020790775","https://openalex.org/W2021183579","https://openalex.org/W2023798198","https://openalex.org/W2024280474","https://openalex.org/W2026241563","https://openalex.org/W2026842770","https://openalex.org/W2028008996","https://openalex.org/W2028913412","https://openalex.org/W2029521343","https://openalex.org/W2029821231","https://openalex.org/W2029873987","https://openalex.org/W2030734815","https://openalex.org/W2035023834","https://openalex.org/W2036699565","https://openalex.org/W2039011578","https://openalex.org/W2040370607","https://openalex.org/W2041103217","https://openalex.org/W2041303456","https://openalex.org/W2047754611","https://openalex.org/W2047755766","https://openalex.org/W2049361027","https://openalex.org/W2049654463","https://openalex.org/W2051854412","https://openalex.org/W2055764576","https://openalex.org/W2056460075","https://openalex.org/W2056497084","https://openalex.org/W2056844872","https://openalex.org/W2057586248","https://openalex.org/W2059199126","https://openalex.org/W2060115129","https://openalex.org/W2060789589","https://openalex.org/W2061690230","https://openalex.org/W2065090911","https://openalex.org/W2066331027","https://openalex.org/W2066774009","https://openalex.org/W2069545688","https://openalex.org/W2071951467","https://openalex.org/W2072152932","https://openalex.org/W2075850990","https://openalex.org/W2076446466","https://openalex.org/W2077562677","https://openalex.org/W2077838441","https://openalex.org/W2078495692","https://openalex.org/W2080641060","https://openalex.org/W2083130684","https://openalex.org/W2083727257","https://openalex.org/W2087376237","https://openalex.org/W2087785865","https://openalex.org/W2088910050","https://openalex.org/W2092394310","https://openalex.org/W2092604981","https://openalex.org/W2094782078","https://openalex.org/W2095881412","https://openalex.org/W2096762433","https://openalex.org/W2099397128","https://openalex.org/W2100158915","https://openalex.org/W2102136017","https://openalex.org/W2103677726","https://openalex.org/W2104128102","https://openalex.org/W2104480389","https://openalex.org/W2105756152","https://openalex.org/W2107258457","https://openalex.org/W2107432248","https://openalex.org/W2107649894","https://openalex.org/W2108752356","https://openalex.org/W2109157139","https://openalex.org/W2111274140","https://openalex.org/W2111353388","https://openalex.org/W2111607063","https://openalex.org/W2112582023","https://openalex.org/W2113512405","https://openalex.org/W2114752404","https://openalex.org/W2114803986","https://openalex.org/W2115176701","https://openalex.org/W2116483876","https://openalex.org/W2116942623","https://openalex.org/W2117372146","https://openalex.org/W2118166844","https://openalex.org/W2118258530","https://openalex.org/W2119037385","https://openalex.org/W2122828334","https://openalex.org/W2123868608","https://openalex.org/W2124376559","https://openalex.org/W2127071798","https://openalex.org/W2128272450","https://openalex.org/W2128377942","https://openalex.org/W2128957015","https://openalex.org/W2129633222","https://openalex.org/W2129666610","https://openalex.org/W2131192238","https://openalex.org/W2131503424","https://openalex.org/W2136144150","https://openalex.org/W2137081063","https://openalex.org/W2138839962","https://openalex.org/W2139166279","https://openalex.org/W2141036059","https://openalex.org/W2142195360","https://openalex.org/W2143387112","https://openalex.org/W2143858958","https://openalex.org/W2144123178","https://openalex.org/W2144990806","https://openalex.org/W2147078566","https://openalex.org/W2147734340","https://openalex.org/W2148860419","https://openalex.org/W2149117642","https://openalex.org/W2151784477","https://openalex.org/W2154109129","https://openalex.org/W2154507579","https://openalex.org/W2154528541","https://openalex.org/W2157944902","https://openalex.org/W2158026707","https://openalex.org/W2158038881","https://openalex.org/W2158177848","https://openalex.org/W2158948026","https://openalex.org/W2159033333","https://openalex.org/W2159667264","https://openalex.org/W2161301111","https://openalex.org/W2161634469","https://openalex.org/W2162616580","https://openalex.org/W2162996116","https://openalex.org/W2163618254","https://openalex.org/W2165064122","https://openalex.org/W2165390431","https://openalex.org/W2165434074","https://openalex.org/W2165446840","https://openalex.org/W2166288018","https://openalex.org/W2167764944","https://openalex.org/W2171432823","https://openalex.org/W2171440644","https://openalex.org/W2171605297","https://openalex.org/W2171808845","https://openalex.org/W2290116412","https://openalex.org/W2312804350","https://openalex.org/W2321714907","https://openalex.org/W2400942767","https://openalex.org/W2949656925","https://openalex.org/W3037842478","https://openalex.org/W4238818545","https://openalex.org/W6666108530"],"related_works":["https://openalex.org/W3124098632","https://openalex.org/W1970019286","https://openalex.org/W3034809213","https://openalex.org/W3118169840","https://openalex.org/W1525192260","https://openalex.org/W2082123987","https://openalex.org/W2151373518","https://openalex.org/W2348141163","https://openalex.org/W2094588941","https://openalex.org/W2076950513"],"abstract_inverted_index":{"Nucleosome":[0],"positioning":[1,67,99],"is":[2,48],"an":[3],"important":[4],"process":[5],"required":[6],"for":[7,93],"proper":[8],"genome":[9],"packing":[10],"and":[11,38,87,101],"its":[12],"accessibility":[13],"to":[14,34,49,58,62,116],"execute":[15],"the":[16,25,35,63,94,109],"genetic":[17],"program":[18],"in":[19,83],"a":[20,51,60],"cell-specific,":[21],"timely":[22],"manner.":[23],"In":[24],"recent":[26],"years":[27],"hundreds":[28],"of":[29,40,45,54,65,77,96,103,119],"papers":[30],"have":[31],"been":[32],"devoted":[33],"bioinformatics,":[36],"physics":[37],"biology":[39],"nucleosome":[41,66,79,98,105],"positioning.":[42],"The":[43],"purpose":[44],"this":[46,55],"review":[47],"cover":[50],"practical":[52],"aspect":[53],"field,":[56],"namely,":[57],"provide":[59],"guide":[61],"multitude":[64],"resources":[68,121],"available":[69],"online.":[70],"These":[71],"include":[72],"almost":[73],"300":[74],"experimental":[75,97],"datasets":[76],"genome-wide":[78],"occupancy":[80],"profiles":[81],"determined":[82],"different":[84],"cell":[85],"types":[86],"more":[88],"than":[89],"40":[90],"computational":[91],"tools":[92],"analysis":[95],"data":[100],"prediction":[102],"intrinsic":[104],"formation":[106],"probabilities":[107],"from":[108],"DNA":[110],"sequence.":[111],"A":[112],"manually":[113],"curated,":[114],"up":[115],"date":[117],"list":[118],"these":[120],"will":[122],"be":[123],"maintained":[124],"at":[125],"http://generegulation.info.":[126]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2024,"cited_by_count":10},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":8},{"year":2021,"cited_by_count":11},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":10},{"year":2018,"cited_by_count":11},{"year":2017,"cited_by_count":9},{"year":2016,"cited_by_count":3}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}