{"id":"https://openalex.org/W2128980664","doi":"https://doi.org/10.1093/bioinformatics/btp703","title":"Limited contribution of stem-loop potential to symmetry of single-stranded genomic DNA","display_name":"Limited contribution of stem-loop potential to symmetry of single-stranded genomic DNA","publication_year":2009,"publication_date":"2009-12-22","ids":{"openalex":"https://openalex.org/W2128980664","doi":"https://doi.org/10.1093/bioinformatics/btp703","mag":"2128980664","pmid":"https://pubmed.ncbi.nlm.nih.gov/20031973"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btp703","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp703","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/4/478/48852947/bioinformatics_26_4_478.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"bronze","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/26/4/478/48852947/bioinformatics_26_4_478.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5000571171","display_name":"Shanghong Zhang","orcid":"https://orcid.org/0000-0003-1131-2002"},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Shang-Hong Zhang","raw_affiliation_strings":["The Key Laboratory of Gene Engineering of Ministry of Education, and Biotechnology Research Center, Sun Yat-sen University, Guangzhou 510275, China"],"affiliations":[{"raw_affiliation_string":"The Key Laboratory of Gene Engineering of Ministry of Education, and Biotechnology Research Center, Sun Yat-sen University, Guangzhou 510275, China","institution_ids":["https://openalex.org/I157773358"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5108240549","display_name":"Yazhi Huang","orcid":null},"institutions":[{"id":"https://openalex.org/I157773358","display_name":"Sun Yat-sen University","ror":"https://ror.org/0064kty71","country_code":"CN","type":"education","lineage":["https://openalex.org/I157773358"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ya-Zhi Huang","raw_affiliation_strings":["The Key Laboratory of Gene Engineering of Ministry of Education, and Biotechnology Research Center, Sun Yat-sen University, Guangzhou 510275, China"],"affiliations":[{"raw_affiliation_string":"The Key Laboratory of Gene Engineering of Ministry of Education, and Biotechnology Research Center, Sun Yat-sen University, Guangzhou 510275, China","institution_ids":["https://openalex.org/I157773358"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5000571171"],"corresponding_institution_ids":["https://openalex.org/I157773358"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.8068,"has_fulltext":false,"cited_by_count":36,"citation_normalized_percentile":{"value":0.72414018,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"26","issue":"4","first_page":"478","last_page":"485"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9991999864578247,"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":0.9991999864578247,"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/T10432","display_name":"DNA and Nucleic Acid Chemistry","score":0.9983000159263611,"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/T11048","display_name":"Bacteriophages and microbial interactions","score":0.996399998664856,"subfield":{"id":"https://openalex.org/subfields/2303","display_name":"Ecology"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6232866048812866},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.5890980362892151},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.5071308612823486},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.4919562041759491},{"id":"https://openalex.org/keywords/oligonucleotide","display_name":"Oligonucleotide","score":0.4783210754394531},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.43906843662261963},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.22371989488601685}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6232866048812866},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.5890980362892151},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.5071308612823486},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.4919562041759491},{"id":"https://openalex.org/C129312508","wikidata":"https://www.wikidata.org/wiki/Q133686","display_name":"Oligonucleotide","level":3,"score":0.4783210754394531},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.43906843662261963},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.22371989488601685}],"mesh":[{"descriptor_ui":"D004277","descriptor_name":"DNA, Single-Stranded","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004277","descriptor_name":"DNA, Single-Stranded","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D004277","descriptor_name":"DNA, Single-Stranded","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D005798","descriptor_name":"Genes, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009690","descriptor_name":"Nucleic Acid Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D009838","descriptor_name":"Oligodeoxyribonucleotides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D009838","descriptor_name":"Oligodeoxyribonucleotides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D009838","descriptor_name":"Oligodeoxyribonucleotides","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btp703","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp703","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/4/478/48852947/bioinformatics_26_4_478.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:20031973","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20031973","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":"Bioinformatics (Oxford, England)","raw_type":null}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btp703","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp703","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/26/4/478/48852947/bioinformatics_26_4_478.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"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":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320312060","display_name":"Francis Crick Institute","ror":"https://ror.org/04tnbqb63"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2128980664.pdf","grobid_xml":"https://content.openalex.org/works/W2128980664.grobid-xml"},"referenced_works_count":40,"referenced_works":["https://openalex.org/W79451068","https://openalex.org/W101895897","https://openalex.org/W165657464","https://openalex.org/W1690607747","https://openalex.org/W1966999516","https://openalex.org/W1983227372","https://openalex.org/W1990316578","https://openalex.org/W1998849751","https://openalex.org/W1999389497","https://openalex.org/W2002487667","https://openalex.org/W2015343928","https://openalex.org/W2020378172","https://openalex.org/W2024034350","https://openalex.org/W2027769711","https://openalex.org/W2034054753","https://openalex.org/W2034605572","https://openalex.org/W2035968178","https://openalex.org/W2039737336","https://openalex.org/W2043675399","https://openalex.org/W2046299964","https://openalex.org/W2047965771","https://openalex.org/W2055571464","https://openalex.org/W2060278966","https://openalex.org/W2076963640","https://openalex.org/W2084082653","https://openalex.org/W2088435101","https://openalex.org/W2126466006","https://openalex.org/W2132688738","https://openalex.org/W2146173737","https://openalex.org/W2154408165","https://openalex.org/W2155734003","https://openalex.org/W2164945928","https://openalex.org/W2165264714","https://openalex.org/W2169224664","https://openalex.org/W2291768992","https://openalex.org/W2466817136","https://openalex.org/W4296934602","https://openalex.org/W6662264587","https://openalex.org/W6696874550","https://openalex.org/W6719404571"],"related_works":["https://openalex.org/W2159038264","https://openalex.org/W2840367830","https://openalex.org/W2168160406","https://openalex.org/W2060852824","https://openalex.org/W2027177155","https://openalex.org/W2024398706","https://openalex.org/W1974344026","https://openalex.org/W2050630975","https://openalex.org/W1990057240","https://openalex.org/W2059862594"],"abstract_inverted_index":{"We":[0,8],"analyzed":[1],"the":[2,26,36,39,48],"complete":[3],"genomes":[4],"of":[5,38,43,52],"90":[6],"prokaryotes.":[7],"found":[9],"that":[10,35],"most":[11],"oligonucleotides":[12],"(pentanucleotides":[13],"and":[14,50],"higher)":[15],"do":[16],"not":[17],"have":[18],"a":[19,77],"reverse":[20],"complement":[21],"in":[22,25],"close":[23],"proximity":[24],"genomic":[27,45],"sequences.":[28],"Combined":[29],"with":[30],"further":[31],"analysis,":[32],"we":[33],"conclude":[34],"contribution":[37],"widespread":[40],"stem-loop":[41],"potential":[42],"single-stranded":[44],"DNA":[46],"to":[47,76],"formation":[49],"maintenance":[51],"strand":[53,69],"symmetry":[54,70],"would":[55],"be":[56,72],"very":[57],"limited,":[58],"at":[59],"least":[60],"for":[61,68],"higher-order":[62],"oligonucleotides.":[63],"Therefore,":[64],"other":[65],"possible":[66],"causes":[67],"must":[71],"taken":[73],"into":[74],"account":[75],"deeper":[78],"degree.":[79]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":5},{"year":2013,"cited_by_count":6},{"year":2012,"cited_by_count":1}],"updated_date":"2026-03-31T07:56:22.981413","created_date":"2025-10-10T00:00:00"}