{"id":"https://openalex.org/W4385186576","doi":"https://doi.org/10.1515/jib-2022-0052","title":"Concentration of inverted repeats along human DNA","display_name":"Concentration of inverted repeats along human DNA","publication_year":2023,"publication_date":"2023-06-01","ids":{"openalex":"https://openalex.org/W4385186576","doi":"https://doi.org/10.1515/jib-2022-0052","pmid":"https://pubmed.ncbi.nlm.nih.gov/37486620"},"language":"en","primary_location":{"id":"doi:10.1515/jib-2022-0052","is_oa":true,"landing_page_url":"https://doi.org/10.1515/jib-2022-0052","pdf_url":"https://www.degruyter.com/document/doi/10.1515/jib-2022-0052/pdf","source":{"id":"https://openalex.org/S4393917359","display_name":"Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics","issn_l":"1432-4385","issn":["1432-4385","1613-4516"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"diamond","oa_url":"https://www.degruyter.com/document/doi/10.1515/jib-2022-0052/pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5062787693","display_name":"Carlos A. C. Bastos","orcid":"https://orcid.org/0000-0001-6869-4713"},"institutions":[{"id":"https://openalex.org/I60858718","display_name":"University of Aveiro","ror":"https://ror.org/00nt41z93","country_code":"PT","type":"education","lineage":["https://openalex.org/I60858718"]}],"countries":["PT"],"is_corresponding":true,"raw_author_name":"Carlos A. C. Bastos","raw_affiliation_strings":["DETI \u2013 Department of Electronics, Telecommunications and Informatics , IEETA \u2013 Institute of Electronics and Informatics Engineering of Aveiro, University of Aveiro , 3810-193 Aveiro , Portugal","LASI \u2013 Intelligent Systems Associate Laboratory , Aveiro , Portugal"],"raw_orcid":"https://orcid.org/0000-0001-6869-4713","affiliations":[{"raw_affiliation_string":"DETI \u2013 Department of Electronics, Telecommunications and Informatics , IEETA \u2013 Institute of Electronics and Informatics Engineering of Aveiro, University of Aveiro , 3810-193 Aveiro , Portugal","institution_ids":["https://openalex.org/I60858718"]},{"raw_affiliation_string":"LASI \u2013 Intelligent Systems Associate Laboratory , Aveiro , Portugal","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5081373693","display_name":"Vera Afreixo","orcid":"https://orcid.org/0000-0003-1051-8084"},"institutions":[{"id":"https://openalex.org/I60858718","display_name":"University of Aveiro","ror":"https://ror.org/00nt41z93","country_code":"PT","type":"education","lineage":["https://openalex.org/I60858718"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Vera Afreixo","raw_affiliation_strings":["CIDMA \u2013 Center for Research and Development in Mathematics and Applications, DMAT \u2013 Department of Mathematics , University of Aveiro , 3810-193 Aveiro , Portugal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CIDMA \u2013 Center for Research and Development in Mathematics and Applications, DMAT \u2013 Department of Mathematics , University of Aveiro , 3810-193 Aveiro , Portugal","institution_ids":["https://openalex.org/I60858718"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100599352","display_name":"Jo\u00e3o M. O. S. Rodrigues","orcid":"https://orcid.org/0000-0001-9187-8094"},"institutions":[{"id":"https://openalex.org/I60858718","display_name":"University of Aveiro","ror":"https://ror.org/00nt41z93","country_code":"PT","type":"education","lineage":["https://openalex.org/I60858718"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Jo\u00e3o M. O. S. Rodrigues","raw_affiliation_strings":["DETI \u2013 Department of Electronics, Telecommunications and Informatics , IEETA \u2013 Institute of Electronics and Informatics Engineering of Aveiro, University of Aveiro , 3810-193 Aveiro , Portugal","LASI \u2013 Intelligent Systems Associate Laboratory , Aveiro , Portugal"],"raw_orcid":"https://orcid.org/0000-0001-9187-8094","affiliations":[{"raw_affiliation_string":"DETI \u2013 Department of Electronics, Telecommunications and Informatics , IEETA \u2013 Institute of Electronics and Informatics Engineering of Aveiro, University of Aveiro , 3810-193 Aveiro , Portugal","institution_ids":["https://openalex.org/I60858718"]},{"raw_affiliation_string":"LASI \u2013 Intelligent Systems Associate Laboratory , Aveiro , Portugal","institution_ids":[]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5075489861","display_name":"Armando J. Pinho","orcid":"https://orcid.org/0000-0002-9164-0016"},"institutions":[{"id":"https://openalex.org/I60858718","display_name":"University of Aveiro","ror":"https://ror.org/00nt41z93","country_code":"PT","type":"education","lineage":["https://openalex.org/I60858718"]}],"countries":["PT"],"is_corresponding":false,"raw_author_name":"Armando J. Pinho","raw_affiliation_strings":["DETI \u2013 Department of Electronics, Telecommunications and Informatics , IEETA \u2013 Institute of Electronics and Informatics Engineering of Aveiro, University of Aveiro , 3810-193 Aveiro , Portugal","LASI \u2013 Intelligent Systems Associate Laboratory , Aveiro , Portugal"],"raw_orcid":"https://orcid.org/0000-0002-9164-0016","affiliations":[{"raw_affiliation_string":"DETI \u2013 Department of Electronics, Telecommunications and Informatics , IEETA \u2013 Institute of Electronics and Informatics Engineering of Aveiro, University of Aveiro , 3810-193 Aveiro , Portugal","institution_ids":["https://openalex.org/I60858718"]},{"raw_affiliation_string":"LASI \u2013 Intelligent Systems Associate Laboratory , Aveiro , Portugal","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5062787693"],"corresponding_institution_ids":["https://openalex.org/I60858718"],"apc_list":null,"apc_paid":null,"fwci":0.4484,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.66790918,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":96},"biblio":{"volume":"20","issue":"2","first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9976000189781189,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9976000189781189,"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":0.9970999956130981,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9969000220298767,"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/inverted-repeat","display_name":"Inverted repeat","score":0.9253880977630615},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.805356502532959},{"id":"https://openalex.org/keywords/human-genome","display_name":"Human genome","score":0.7043768167495728},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5607321262359619},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5136510729789734},{"id":"https://openalex.org/keywords/genome-size","display_name":"Genome size","score":0.44300004839897156},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.35930994153022766},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.24109899997711182}],"concepts":[{"id":"https://openalex.org/C51603236","wikidata":"https://www.wikidata.org/wiki/Q4852694","display_name":"Inverted repeat","level":4,"score":0.9253880977630615},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.805356502532959},{"id":"https://openalex.org/C197077220","wikidata":"https://www.wikidata.org/wiki/Q720988","display_name":"Human genome","level":4,"score":0.7043768167495728},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5607321262359619},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5136510729789734},{"id":"https://openalex.org/C61271108","wikidata":"https://www.wikidata.org/wiki/Q3180866","display_name":"Genome size","level":4,"score":0.44300004839897156},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.35930994153022766},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.24109899997711182}],"mesh":[{"descriptor_ui":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008390","descriptor_name":"Markov Chains","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015894","descriptor_name":"Genome, Human","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055029","descriptor_name":"Inverted Repeat Sequences","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1515/jib-2022-0052","is_oa":true,"landing_page_url":"https://doi.org/10.1515/jib-2022-0052","pdf_url":"https://www.degruyter.com/document/doi/10.1515/jib-2022-0052/pdf","source":{"id":"https://openalex.org/S4393917359","display_name":"Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics","issn_l":"1432-4385","issn":["1432-4385","1613-4516"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Bioinformatics","raw_type":"journal-article"},{"id":"pmid:37486620","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/37486620","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":"Journal of integrative bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10561070","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10561070","pdf_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC10561070/pdf/jib-20-2-jib-2022-0052.pdf","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":"J Integr Bioinform","raw_type":"Text"},{"id":"pmh:oai:doaj.org/article:69dc8f26c54b4d2696dfeb8d6eddad9d","is_oa":true,"landing_page_url":"https://doaj.org/article/69dc8f26c54b4d2696dfeb8d6eddad9d","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Journal of Integrative Bioinformatics, Vol 20, Iss 2, Pp 371-84 (2023)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1515/jib-2022-0052","is_oa":true,"landing_page_url":"https://doi.org/10.1515/jib-2022-0052","pdf_url":"https://www.degruyter.com/document/doi/10.1515/jib-2022-0052/pdf","source":{"id":"https://openalex.org/S4393917359","display_name":"Berichte aus der medizinischen Informatik und Bioinformatik/Journal of integrative bioinformatics","issn_l":"1432-4385","issn":["1432-4385","1613-4516"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Integrative Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.5799999833106995,"id":"https://metadata.un.org/sdg/16","display_name":"Peace, Justice and strong institutions"}],"awards":[{"id":"https://openalex.org/G2590986966","display_name":"Center for Research and Development in Mathematics and Applications","funder_award_id":"UIDB/04106/2020","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G6147775995","display_name":"Institute of Electronics and Informatics Engineering of Aveiro","funder_award_id":"UIDB/00127/2020","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"},{"id":"https://openalex.org/G7394643644","display_name":"Center for Research and Development in Mathematics and Applications","funder_award_id":"UIDP/04106/2020","funder_id":"https://openalex.org/F4320334779","funder_display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia"}],"funders":[{"id":"https://openalex.org/F4320334779","display_name":"Funda\u00e7\u00e3o para a Ci\u00eancia e a Tecnologia","ror":"https://ror.org/00snfqn58"}],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4385186576.pdf"},"referenced_works_count":14,"referenced_works":["https://openalex.org/W1825949656","https://openalex.org/W1970383168","https://openalex.org/W1999364887","https://openalex.org/W2073921172","https://openalex.org/W2111705979","https://openalex.org/W2112814753","https://openalex.org/W2128016314","https://openalex.org/W2509685232","https://openalex.org/W2604759005","https://openalex.org/W2955277798","https://openalex.org/W3126007358","https://openalex.org/W4281701481","https://openalex.org/W4306800525","https://openalex.org/W6608097372"],"related_works":["https://openalex.org/W2163302769","https://openalex.org/W2380089835","https://openalex.org/W1973073311","https://openalex.org/W2613624654","https://openalex.org/W2277864219","https://openalex.org/W3196805860","https://openalex.org/W2985720674","https://openalex.org/W3035044187","https://openalex.org/W2177889206","https://openalex.org/W3128719396"],"abstract_inverted_index":{"-scores":[0],"based":[1],"measure).":[2],"We":[3],"simulate":[4],"a":[5],"genome":[6,23,47],"using":[7],"an":[8],"order":[9],"7":[10],"Markov":[11],"model":[12],"trained":[13],"with":[14,41,81,95,109],"the":[15,18,28,39,53,63,74,79,99],"data":[16],"from":[17],"real":[19],"genome.":[20,75],"The":[21,66,76],"simulated":[22],"is":[24,59],"used":[25,33],"to":[26,37,121],"establish":[27],"critical":[29],"values":[30],"which":[31],"are":[32,49,92],"as":[34],"decision":[35],"thresholds":[36],"identify":[38],"regions":[40,48,80,94,108,119],"significant":[42],"enriched":[43,51],"concentrations.":[44],"Several":[45],"human":[46,64],"highly":[50],"in":[52,61],"occurrence":[54],"of":[55,68,78],"inverted":[56,69,89,100],"repeats.":[57,90],"This":[58],"observed":[60],"all":[62],"chromosomes.":[65],"distribution":[67,103],"repeat":[70],"lengths":[71,102,114],"varies":[72],"along":[73,98],"majority":[77],"severely":[82],"exaggerated":[83,110],"enrichment":[84,111],"contain":[85],"mainly":[86],"short":[87],"length":[88],"There":[91],"also":[93],"regular":[96],"peaks":[97],"repeats":[101],"(periodic":[104],"regularities)":[105],"and":[106],"other":[107],"for":[112],"long":[113],"(less":[115],"frequent).":[116],"However,":[117],"adjacent":[118],"tend":[120],"have":[122],"similar":[123],"distributions.":[124]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1}],"updated_date":"2026-04-28T14:05:53.105641","created_date":"2025-10-10T00:00:00"}
