{"id":"https://openalex.org/W2099560269","doi":"https://doi.org/10.1093/bioinformatics/btu534","title":"Comparative assembly hubs: Web-accessible browsers for comparative genomics","display_name":"Comparative assembly hubs: Web-accessible browsers for comparative genomics","publication_year":2014,"publication_date":"2014-08-18","ids":{"openalex":"https://openalex.org/W2099560269","doi":"https://doi.org/10.1093/bioinformatics/btu534","mag":"2099560269","pmid":"https://pubmed.ncbi.nlm.nih.gov/25138168"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btu534","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu534","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/23/3293/48931548/bioinformatics_30_23_3293.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/30/23/3293/48931548/bioinformatics_30_23_3293.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5108549697","display_name":"Ngan Nguyen","orcid":"https://orcid.org/0009-0006-4738-5632"},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ngan Nguyen","raw_affiliation_strings":["1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I185103710"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5077539873","display_name":"Glenn Hickey","orcid":"https://orcid.org/0000-0002-2280-9404"},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Glenn Hickey","raw_affiliation_strings":["1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I185103710"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5063722321","display_name":"Brian J. Raney","orcid":"https://orcid.org/0000-0002-9708-1390"},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Brian J. Raney","raw_affiliation_strings":["1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I185103710"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5001974568","display_name":"Joel Armstrong","orcid":"https://orcid.org/0000-0003-2077-4671"},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Joel Armstrong","raw_affiliation_strings":["1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I185103710"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5079146965","display_name":"Hiram Clawson","orcid":"https://orcid.org/0000-0002-0480-0545"},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hiram Clawson","raw_affiliation_strings":["1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I185103710"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5034427205","display_name":"Ann S. Zweig","orcid":null},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Ann Zweig","raw_affiliation_strings":["1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I185103710"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076917634","display_name":"Donna Karolchik","orcid":null},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Donna Karolchik","raw_affiliation_strings":["1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I185103710"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5104457617","display_name":"William Kent","orcid":null},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"William James Kent","raw_affiliation_strings":["1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I185103710"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5090849321","display_name":"David Haussler","orcid":"https://orcid.org/0000-0003-1533-4575"},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"David Haussler","raw_affiliation_strings":["1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I185103710"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5061203088","display_name":"Benedict Paten","orcid":"https://orcid.org/0000-0001-8863-3539"},"institutions":[{"id":"https://openalex.org/I1344073410","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90","country_code":"US","type":"facility","lineage":["https://openalex.org/I1344073410"]},{"id":"https://openalex.org/I185103710","display_name":"University of California, Santa Cruz","ror":"https://ror.org/03s65by71","country_code":"US","type":"education","lineage":["https://openalex.org/I185103710"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Benedict Paten","raw_affiliation_strings":["1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Biomolecular Sciences and Engineering, CBSE/ITI, UC Santa Cruz, 1156 High St, Santa Cruz, CA 95064, USA and 2Howard Hughes Medical Institute, Center for Biomolecular Science and Engineering, UCSC, 1156 High Street, Santa Cruz, CA 95064, USA","institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I185103710"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5061203088"],"corresponding_institution_ids":["https://openalex.org/I1344073410","https://openalex.org/I185103710"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.17,"has_fulltext":true,"cited_by_count":30,"citation_normalized_percentile":{"value":0.77600038,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"30","issue":"23","first_page":"3293","last_page":"3301"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.8411999940872192,"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":0.8411999940872192,"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/T13664","display_name":"Genome Rearrangement Algorithms","score":0.05979999899864197,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/T11764","display_name":"Evolution and Genetic Dynamics","score":0.010700000450015068,"subfield":{"id":"https://openalex.org/subfields/1311","display_name":"Genetics"},"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/genome-browser","display_name":"Genome browser","score":0.717092752456665},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6520858407020569},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.5496495962142944},{"id":"https://openalex.org/keywords/comparative-genomics","display_name":"Comparative genomics","score":0.537590503692627},{"id":"https://openalex.org/keywords/source-code","display_name":"Source code","score":0.5355724096298218},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.5032264590263367},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4870372414588928},{"id":"https://openalex.org/keywords/genomics","display_name":"Genomics","score":0.4844520092010498},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.45615899562835693},{"id":"https://openalex.org/keywords/web-browser","display_name":"Web browser","score":0.41874659061431885},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.368874728679657},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.33626657724380493},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.21001455187797546},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.10275062918663025}],"concepts":[{"id":"https://openalex.org/C2781148417","wikidata":"https://www.wikidata.org/wiki/Q5533486","display_name":"Genome browser","level":5,"score":0.717092752456665},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6520858407020569},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.5496495962142944},{"id":"https://openalex.org/C105176652","wikidata":"https://www.wikidata.org/wiki/Q1147112","display_name":"Comparative genomics","level":5,"score":0.537590503692627},{"id":"https://openalex.org/C43126263","wikidata":"https://www.wikidata.org/wiki/Q128751","display_name":"Source code","level":2,"score":0.5355724096298218},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.5032264590263367},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4870372414588928},{"id":"https://openalex.org/C189206191","wikidata":"https://www.wikidata.org/wiki/Q222046","display_name":"Genomics","level":4,"score":0.4844520092010498},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.45615899562835693},{"id":"https://openalex.org/C2983909278","wikidata":"https://www.wikidata.org/wiki/Q6368","display_name":"Web browser","level":3,"score":0.41874659061431885},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.368874728679657},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.33626657724380493},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.21001455187797546},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.10275062918663025},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004926","descriptor_name":"Escherichia coli","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012760","descriptor_name":"Shigella","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012760","descriptor_name":"Shigella","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D012760","descriptor_name":"Shigella","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016680","descriptor_name":"Genome, Bacterial","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D023281","descriptor_name":"Genomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D058977","descriptor_name":"Molecular Sequence Annotation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D064878","descriptor_name":"Web Browser","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064878","descriptor_name":"Web Browser","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D064878","descriptor_name":"Web Browser","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btu534","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu534","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/23/3293/48931548/bioinformatics_30_23_3293.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:25138168","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25138168","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},{"id":"pmh:oai:escholarship.org:ark:/13030/qt59p3t5gq","is_oa":false,"landing_page_url":"https://escholarship.org/uc/item/59p3t5gq","pdf_url":null,"source":{"id":"https://openalex.org/S4306400115","display_name":"eScholarship (California Digital Library)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I2801248553","host_organization_name":"California Digital Library","host_organization_lineage":["https://openalex.org/I2801248553"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics, vol 30, iss 23","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4296145","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4296145","pdf_url":null,"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":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btu534","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btu534","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/30/23/3293/48931548/bioinformatics_30_23_3293.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":[{"score":0.49000000953674316,"id":"https://metadata.un.org/sdg/17","display_name":"Partnerships for the goals"}],"awards":[{"id":"https://openalex.org/G1204465483","display_name":null,"funder_award_id":"1U41HG007234-01","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G1234929443","display_name":null,"funder_award_id":"U41 HG002371","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G134308097","display_name":null,"funder_award_id":"U01 HG004695","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G1415960907","display_name":null,"funder_award_id":"U41HG006992","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G1623698995","display_name":null,"funder_award_id":"U41 HG007234","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G7152221847","display_name":null,"funder_award_id":"1U41HG006992-2","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G8448016098","display_name":null,"funder_award_id":"5U01HG004695","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"}],"funders":[{"id":"https://openalex.org/F4320306082","display_name":"Howard Hughes Medical Institute","ror":"https://ror.org/006w34k90"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2099560269.pdf","grobid_xml":"https://content.openalex.org/works/W2099560269.grobid-xml"},"referenced_works_count":32,"referenced_works":["https://openalex.org/W84733630","https://openalex.org/W1590308370","https://openalex.org/W1990095531","https://openalex.org/W2032866129","https://openalex.org/W2038639577","https://openalex.org/W2041257508","https://openalex.org/W2048385877","https://openalex.org/W2061527369","https://openalex.org/W2064452752","https://openalex.org/W2084231307","https://openalex.org/W2108871359","https://openalex.org/W2114416522","https://openalex.org/W2116790427","https://openalex.org/W2117131162","https://openalex.org/W2120772351","https://openalex.org/W2126958666","https://openalex.org/W2130844781","https://openalex.org/W2140055375","https://openalex.org/W2142402047","https://openalex.org/W2144322830","https://openalex.org/W2146127418","https://openalex.org/W2149517531","https://openalex.org/W2158804744","https://openalex.org/W2160379721","https://openalex.org/W2166825456","https://openalex.org/W2171769070","https://openalex.org/W2245756385","https://openalex.org/W2558692177","https://openalex.org/W4253703073","https://openalex.org/W6603462319","https://openalex.org/W6638822778","https://openalex.org/W6677416559"],"related_works":["https://openalex.org/W1493660383","https://openalex.org/W2759519215","https://openalex.org/W4318240630","https://openalex.org/W2353729507","https://openalex.org/W189065216","https://openalex.org/W2350466590","https://openalex.org/W1542620732","https://openalex.org/W3031625301","https://openalex.org/W4386771068","https://openalex.org/W1968252650"],"abstract_inverted_index":{"MOTIVATION:":[0],"Researchers":[1],"now":[2,206],"have":[3],"access":[4],"to":[5,41,54,57,69,85,124,140,154],"large":[6],"volumes":[7],"of":[8,19,49,73,98,150],"genome":[9,38,126,203],"sequences":[10],"for":[11],"comparative":[12,88,167],"analysis,":[13],"some":[14],"generated":[15],"by":[16,79],"the":[17,36,93,107,110,115,128,145,212],"plethora":[18],"public":[20,37,104,208,215],"sequencing":[21],"projects":[22],"and,":[23],"increasingly,":[24],"from":[25,152],"individual":[26],"efforts.":[27],"It":[28,82],"is":[29,52,83,192,205],"not":[30],"possible,":[31],"or":[32],"necessarily":[33],"desirable,":[34],"that":[35,181],"browsers":[39],"attempt":[40],"curate":[42],"all":[43,112,142,148],"these":[44],"data.":[45],"Instead,":[46],"a":[47,67,166,207],"wealth":[48],"powerful":[50],"tools":[51],"emerging":[53],"empower":[55],"users":[56],"create":[58,165],"their":[59,183],"own":[60],"visualizations":[61],"and":[62,95,101,114,174,178,201],"browsers.":[63],"RESULTS:":[64],"We":[65],"introduce":[66],"pipeline":[68],"easily":[70],"generate":[71],"collections":[72],"Web-accessible":[74],"UCSC":[75,213],"Genome":[76],"Browsers":[77],"interrelated":[78],"an":[80],"alignment.":[81],"intended":[84],"democratize":[86],"our":[87],"genomic":[89],"browser":[90,214],"resources,":[91],"serving":[92],"broad":[94],"growing":[96],"community":[97],"evolutionary":[99],"genomicists":[100],"facilitating":[102],"easy":[103],"sharing":[105],"via":[106],"Internet.":[108],"Using":[109],"alignment,":[111],"annotations":[113],"alignment":[116,135],"itself":[117],"can":[118],"be":[119],"efficiently":[120],"viewed":[121],"with":[122],"reference":[123],"any":[125],"in":[127],"collection,":[129],"symmetrically.":[130],"A":[131],"new,":[132],"intelligently":[133],"scaled":[134],"display":[136],"makes":[137],"it":[138],"simple":[139],"view":[141],"changes":[143],"between":[144],"genomes":[146,177],"at":[147],"levels":[149],"resolution,":[151],"substitutions":[153],"complex":[155],"structural":[156],"rearrangements,":[157],"including":[158],"duplications.":[159],"To":[160],"demonstrate":[161],"this":[162],"work,":[163],"we":[164],"assembly":[168],"hub":[169,204,209],"containing":[170],"57":[171],"Escherichia":[172],"coli":[173],"9":[175],"Shigella":[176,202],"show":[179],"examples":[180],"highlight":[182],"unique":[184],"biology.":[185],"AVAILABILITY":[186],"AND":[187],"IMPLEMENTATION:":[188],"The":[189,199],"source":[190,196],"code":[191],"available":[193],"as":[194],"open":[195],"at:":[197],"https://github.com/glennhickey/progressiveCactus":[198],"E.coli":[200],"listed":[210],"on":[211],"hubs":[216],"Web":[217],"page.":[218]},"counts_by_year":[{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":4},{"year":2019,"cited_by_count":2},{"year":2018,"cited_by_count":9},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":2},{"year":2014,"cited_by_count":2}],"updated_date":"2026-08-01T09:00:35.917206","created_date":"2025-10-10T00:00:00"}