{"id":"https://openalex.org/W2159087567","doi":"https://doi.org/10.1021/ci040104j","title":"Algorithm for Coding DNA Sequences into \u201cSpectrum-like\u201d and \u201cZigzag\u201d Representations","display_name":"Algorithm for Coding DNA Sequences into \u201cSpectrum-like\u201d and \u201cZigzag\u201d Representations","publication_year":2005,"publication_date":"2005-02-18","ids":{"openalex":"https://openalex.org/W2159087567","doi":"https://doi.org/10.1021/ci040104j","mag":"2159087567","pmid":"https://pubmed.ncbi.nlm.nih.gov/15807492"},"language":"en","primary_location":{"id":"doi:10.1021/ci040104j","is_oa":false,"landing_page_url":"https://doi.org/10.1021/ci040104j","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","pubmed"],"open_access":{"is_oa":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5042418492","display_name":"Jure Zupan","orcid":"https://orcid.org/0000-0001-9410-4588"},"institutions":[{"id":"https://openalex.org/I4210152560","display_name":"National Institute of Chemistry","ror":"https://ror.org/050mac570","country_code":"SI","type":"facility","lineage":["https://openalex.org/I4210152560"]}],"countries":["SI"],"is_corresponding":true,"raw_author_name":"Jure Zupan","raw_affiliation_strings":["National Institute of Chemistry, Hajdrihova 19, 1000 Ljubljana, Slovenia 61115"],"affiliations":[{"raw_affiliation_string":"National Institute of Chemistry, Hajdrihova 19, 1000 Ljubljana, Slovenia 61115","institution_ids":["https://openalex.org/I4210152560"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5081252768","display_name":"Milan Randi\u0107","orcid":"https://orcid.org/0000-0002-1169-4701"},"institutions":[{"id":"https://openalex.org/I4210152560","display_name":"National Institute of Chemistry","ror":"https://ror.org/050mac570","country_code":"SI","type":"facility","lineage":["https://openalex.org/I4210152560"]}],"countries":["SI"],"is_corresponding":false,"raw_author_name":"Milan Randi\u0107","raw_affiliation_strings":["National Institute of Chemistry, Hajdrihova 19, 1000 Ljubljana, Slovenia 61115"],"affiliations":[{"raw_affiliation_string":"National Institute of Chemistry, Hajdrihova 19, 1000 Ljubljana, Slovenia 61115","institution_ids":["https://openalex.org/I4210152560"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5042418492"],"corresponding_institution_ids":["https://openalex.org/I4210152560"],"apc_list":null,"apc_paid":null,"fwci":2.5844,"has_fulltext":false,"cited_by_count":41,"citation_normalized_percentile":{"value":0.89791092,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"45","issue":"2","first_page":"309","last_page":"313"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12946","display_name":"Fractal and DNA sequence analysis","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/T12946","display_name":"Fractal and DNA sequence analysis","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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9965000152587891,"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":0.9926999807357788,"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/cytosine","display_name":"Cytosine","score":0.6143795251846313},{"id":"https://openalex.org/keywords/zigzag","display_name":"Zigzag","score":0.5652572512626648},{"id":"https://openalex.org/keywords/nucleobase","display_name":"Nucleobase","score":0.5256325602531433},{"id":"https://openalex.org/keywords/amino-acid","display_name":"Amino acid","score":0.49997544288635254},{"id":"https://openalex.org/keywords/string","display_name":"String (physics)","score":0.482201486825943},{"id":"https://openalex.org/keywords/thymine","display_name":"Thymine","score":0.45432889461517334},{"id":"https://openalex.org/keywords/base-pair","display_name":"Base pair","score":0.4177917242050171},{"id":"https://openalex.org/keywords/combinatorics","display_name":"Combinatorics","score":0.41490763425827026},{"id":"https://openalex.org/keywords/dna","display_name":"DNA","score":0.40661782026290894},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3494694232940674},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.32313039898872375},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.3215126395225525},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.30095240473747253},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2434389889240265},{"id":"https://openalex.org/keywords/geometry","display_name":"Geometry","score":0.08138462901115417}],"concepts":[{"id":"https://openalex.org/C2776023528","wikidata":"https://www.wikidata.org/wiki/Q178425","display_name":"Cytosine","level":3,"score":0.6143795251846313},{"id":"https://openalex.org/C192271897","wikidata":"https://www.wikidata.org/wiki/Q198438","display_name":"Zigzag","level":2,"score":0.5652572512626648},{"id":"https://openalex.org/C61234307","wikidata":"https://www.wikidata.org/wiki/Q422960","display_name":"Nucleobase","level":3,"score":0.5256325602531433},{"id":"https://openalex.org/C515207424","wikidata":"https://www.wikidata.org/wiki/Q8066","display_name":"Amino acid","level":2,"score":0.49997544288635254},{"id":"https://openalex.org/C157486923","wikidata":"https://www.wikidata.org/wiki/Q1376436","display_name":"String (physics)","level":2,"score":0.482201486825943},{"id":"https://openalex.org/C2776858809","wikidata":"https://www.wikidata.org/wiki/Q171973","display_name":"Thymine","level":3,"score":0.45432889461517334},{"id":"https://openalex.org/C185581394","wikidata":"https://www.wikidata.org/wiki/Q145911","display_name":"Base pair","level":3,"score":0.4177917242050171},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","level":1,"score":0.41490763425827026},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.40661782026290894},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3494694232940674},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.32313039898872375},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.3215126395225525},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.30095240473747253},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2434389889240265},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.08138462901115417},{"id":"https://openalex.org/C37914503","wikidata":"https://www.wikidata.org/wiki/Q156495","display_name":"Mathematical physics","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","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":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"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":"D004247","descriptor_name":"DNA","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008969","descriptor_name":"Molecular Sequence Data","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1021/ci040104j","is_oa":false,"landing_page_url":"https://doi.org/10.1021/ci040104j","pdf_url":null,"source":{"id":"https://openalex.org/S167262187","display_name":"Journal of Chemical Information and Modeling","issn_l":"1549-9596","issn":["1549-9596","1549-960X"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310320006","host_organization_name":"American Chemical Society","host_organization_lineage":["https://openalex.org/P4310320006"],"host_organization_lineage_names":["American Chemical Society"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Journal of Chemical Information and Modeling","raw_type":"journal-article"},{"id":"pmid:15807492","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/15807492","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 chemical information and modeling","raw_type":null}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":19,"referenced_works":["https://openalex.org/W1963733856","https://openalex.org/W1964823421","https://openalex.org/W1969391158","https://openalex.org/W1977610286","https://openalex.org/W1997361723","https://openalex.org/W1998429541","https://openalex.org/W2009572374","https://openalex.org/W2037121588","https://openalex.org/W2058271398","https://openalex.org/W2059595348","https://openalex.org/W2060088070","https://openalex.org/W2076938808","https://openalex.org/W2094296386","https://openalex.org/W2094930385","https://openalex.org/W2121540501","https://openalex.org/W2129103781","https://openalex.org/W2203679171","https://openalex.org/W2801345297","https://openalex.org/W4205827160"],"related_works":["https://openalex.org/W4382400459","https://openalex.org/W3045682894","https://openalex.org/W2182674531","https://openalex.org/W2032080087","https://openalex.org/W139804750","https://openalex.org/W2100458592","https://openalex.org/W4364353678","https://openalex.org/W2006998980","https://openalex.org/W3165347848","https://openalex.org/W2031698103"],"abstract_inverted_index":{"An":[0],"algorithm":[1],"for":[2,73,99,108],"encoding":[3,50,135],"long":[4,167],"strings":[5,148],"of":[6,84,88,132,137,143,149,154,161],"building":[7],"blocks,":[8],"like":[9],"4":[10],"DNA":[11],"bases":[12],"(adenine-A,":[13],"cytosine-C,":[14],"thymine-T,":[15],"and":[16,103,140],"guanidine-G),":[17],"20":[18,106],"natural":[19,109],"amino":[20,110,165],"acids":[21,111,166],"(from":[22,37],"Alanine":[23],"Ala":[24],"to":[25,39],"Valine-Val,":[26],"plus":[27,112],"the":[28,56,64,71,75,81,85,92,123,133,138,144,150],"stop":[29],"triplet),":[30],"or":[31,43,59,105,126],"all":[32],"64":[33],"possible":[34],"base":[35],"triplets":[36],"AAA":[38],"TTT),":[40],"into":[41],"\"zigzag\"":[42],"\"spectrum-like\"":[44,76],"representations":[45],"is":[46,78,80,94,168],"suggested.":[47],"The":[48,67],"new":[49],"scheme":[51,136],"can":[52,118],"be":[53,119],"derived":[54],"in":[55,121],"3-,":[57,124],"2-,":[58,125],"1-dimensional":[60],"form":[61],"depending":[62],"on":[63],"user's":[65],"wishes.":[66],"only":[68],"information,":[69],"besides":[70],"string":[72,93,159],"which":[74,91],"representation":[77],"sought,":[79],"initial":[82,116],"positioning":[83,117],"complete":[86],"set":[87],"units":[89],"from":[90],"composed,":[95],"i.e.,":[96],"four":[97],"positions":[98,107],"A,":[100],"C,":[101],"G,":[102],"T,":[104],"stop,":[113],"etc.":[114],"This":[115],"initialized":[120],"either":[122],"1-D":[127],"form.":[128],"As":[129],"an":[130],"illustration":[131],"suggested":[134],"visual":[139],"chemometric":[141],"comparison":[142],"first":[145],"10":[146,155],"exon":[147],"beta":[151],"globin":[152],"gene":[153],"different":[156],"species,":[157],"each":[158],"consisting":[160],"about":[162],"100":[163],"basic":[164],"shown.":[169]},"counts_by_year":[{"year":2017,"cited_by_count":2},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":1},{"year":2012,"cited_by_count":4}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}
