{"id":"https://openalex.org/W2169564082","doi":"https://doi.org/10.1093/bioinformatics/btm128","title":"SQUINT: a multiple alignment program and editor","display_name":"SQUINT: a multiple alignment program and editor","publication_year":2007,"publication_date":"2007-05-07","ids":{"openalex":"https://openalex.org/W2169564082","doi":"https://doi.org/10.1093/bioinformatics/btm128","mag":"2169564082","pmid":"https://pubmed.ncbi.nlm.nih.gov/17485434"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btm128","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btm128","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/23/12/1553/49813069/bioinformatics_23_12_1553.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/23/12/1553/49813069/bioinformatics_23_12_1553.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5033366712","display_name":"Matthew Goode","orcid":null},"institutions":[{"id":"https://openalex.org/I154130895","display_name":"University of Auckland","ror":"https://ror.org/03b94tp07","country_code":"NZ","type":"education","lineage":["https://openalex.org/I154130895"]}],"countries":["NZ"],"is_corresponding":false,"raw_author_name":"Matthew G. Goode","raw_affiliation_strings":["Bioinformatics Institute, Private Bag 92019, University of Auckland, Auckland, New Zealand"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Institute, Private Bag 92019, University of Auckland, Auckland, New Zealand","institution_ids":["https://openalex.org/I154130895"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5015045944","display_name":"Allen G. Rodrigo","orcid":"https://orcid.org/0000-0002-8327-7317"},"institutions":[{"id":"https://openalex.org/I154130895","display_name":"University of Auckland","ror":"https://ror.org/03b94tp07","country_code":"NZ","type":"education","lineage":["https://openalex.org/I154130895"]}],"countries":["NZ"],"is_corresponding":true,"raw_author_name":"Allen G. Rodrigo","raw_affiliation_strings":["Bioinformatics Institute, Private Bag 92019, University of Auckland, Auckland, New Zealand"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Bioinformatics Institute, Private Bag 92019, University of Auckland, Auckland, New Zealand","institution_ids":["https://openalex.org/I154130895"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5015045944"],"corresponding_institution_ids":["https://openalex.org/I154130895"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.6662,"has_fulltext":true,"cited_by_count":23,"citation_normalized_percentile":{"value":0.69359048,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"23","issue":"12","first_page":"1553","last_page":"1555"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.39399999380111694,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.39399999380111694,"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":0.19689999520778656,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.07559999823570251,"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/multiple-sequence-alignment","display_name":"Multiple sequence alignment","score":0.8012650012969971},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7821177244186401},{"id":"https://openalex.org/keywords/block","display_name":"Block (permutation group theory)","score":0.6919406652450562},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.6668528318405151},{"id":"https://openalex.org/keywords/sequence-alignment","display_name":"Sequence alignment","score":0.6336278915405273},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.599516749382019},{"id":"https://openalex.org/keywords/file-format","display_name":"File format","score":0.5559548735618591},{"id":"https://openalex.org/keywords/variety","display_name":"Variety (cybernetics)","score":0.518311619758606},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.34570902585983276},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.29497382044792175},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.24627956748008728},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.10136908292770386},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.07193264365196228},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.05544590950012207}],"concepts":[{"id":"https://openalex.org/C88031987","wikidata":"https://www.wikidata.org/wiki/Q1377767","display_name":"Multiple sequence alignment","level":5,"score":0.8012650012969971},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7821177244186401},{"id":"https://openalex.org/C2777210771","wikidata":"https://www.wikidata.org/wiki/Q4927124","display_name":"Block (permutation group theory)","level":2,"score":0.6919406652450562},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.6668528318405151},{"id":"https://openalex.org/C45484198","wikidata":"https://www.wikidata.org/wiki/Q827246","display_name":"Sequence alignment","level":4,"score":0.6336278915405273},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.599516749382019},{"id":"https://openalex.org/C97250363","wikidata":"https://www.wikidata.org/wiki/Q235557","display_name":"File format","level":2,"score":0.5559548735618591},{"id":"https://openalex.org/C136197465","wikidata":"https://www.wikidata.org/wiki/Q1729295","display_name":"Variety (cybernetics)","level":2,"score":0.518311619758606},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.34570902585983276},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.29497382044792175},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.24627956748008728},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.10136908292770386},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.07193264365196228},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.05544590950012207},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.0},{"id":"https://openalex.org/C2524010","wikidata":"https://www.wikidata.org/wiki/Q8087","display_name":"Geometry","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000595","descriptor_name":"Amino Acid 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":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012689","descriptor_name":"Sequence Homology, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012689","descriptor_name":"Sequence Homology, Nucleic Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012689","descriptor_name":"Sequence Homology, Nucleic Acid","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":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017386","descriptor_name":"Sequence Homology, Amino Acid","qualifier_ui":null,"qualifier_name":null,"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},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020539","descriptor_name":"Sequence Analysis, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btm128","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btm128","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/23/12/1553/49813069/bioinformatics_23_12_1553.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:17485434","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/17485434","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/btm128","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btm128","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/23/12/1553/49813069/bioinformatics_23_12_1553.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":[{"display_name":"Partnerships for the goals","id":"https://metadata.un.org/sdg/17","score":0.5299999713897705}],"awards":[],"funders":[{"id":"https://openalex.org/F4320309933","display_name":"Allan Wilson Centre","ror":"https://ror.org/02gbgwz87"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2169564082.pdf","grobid_xml":"https://content.openalex.org/works/W2169564082.grobid-xml"},"referenced_works_count":9,"referenced_works":["https://openalex.org/W34709039","https://openalex.org/W1969153299","https://openalex.org/W2029195137","https://openalex.org/W2100412820","https://openalex.org/W2106882534","https://openalex.org/W2132926880","https://openalex.org/W2143210482","https://openalex.org/W2171518395","https://openalex.org/W6601374201"],"related_works":["https://openalex.org/W88386512","https://openalex.org/W2160791843","https://openalex.org/W2129361631","https://openalex.org/W2106241755","https://openalex.org/W1725737257","https://openalex.org/W1977143711","https://openalex.org/W2350395044","https://openalex.org/W40413237","https://openalex.org/W3210186669","https://openalex.org/W2101990673"],"abstract_inverted_index":{"SUMMARY:":[0],"SQUINT":[1],"is":[2,94],"a":[3,71],"sequence":[4,12,26],"alignment":[5,13,28,44,74],"tool,":[6],"and":[7,33,56],"combines":[8],"both":[9],"automated":[10],"progressive":[11],"with":[14],"facilities":[15],"for":[16,97],"manual":[17],"editing.":[18],"The":[19,92],"program":[20],"imports":[21],"nucleotide":[22],"or":[23],"amino":[24],"acid":[25],"multiple":[27,43,68],"files":[29],"in":[30,47,53,65,87],"standard":[31],"formats,":[32],"permits":[34],"users":[35],"to":[36],"view":[37,49],"two":[38],"translations":[39],"of":[40,60,73,82],"the":[41,54,57,61,88],"same":[42],"simultaneously.":[45],"Edits":[46],"one":[48],"are":[50,63],"instantaneously":[51],"reflected":[52],"other,":[55],"scoring":[58],"cost":[59],"changes":[62],"shown":[64],"real-time.":[66],"Progressive":[67],"alignments,":[69],"using":[70],"variety":[72],"parameters,":[75],"can":[76],"be":[77],"performed":[78],"on":[79],"any":[80],"block":[81],"sequences,":[83],"including":[84],"blocks":[85],"embedded":[86],"existing":[89],"alignment.":[90],"AVAILABILITY:":[91],"software":[93],"freely":[95],"available":[96],"download":[98],"at":[99],"http://www.cebl.auckland.ac.nz":[100]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":3},{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":2},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":2},{"year":2015,"cited_by_count":1},{"year":2013,"cited_by_count":1},{"year":2012,"cited_by_count":3}],"updated_date":"2026-06-23T06:36:01.041984","created_date":"2025-10-10T00:00:00"}