{"id":"https://openalex.org/W2127781493","doi":"https://doi.org/10.1093/bioinformatics/btt273","title":"GAGE-B: an evaluation of genome assemblers for bacterial organisms","display_name":"GAGE-B: an evaluation of genome assemblers for bacterial organisms","publication_year":2013,"publication_date":"2013-05-10","ids":{"openalex":"https://openalex.org/W2127781493","doi":"https://doi.org/10.1093/bioinformatics/btt273","mag":"2127781493","pmid":"https://pubmed.ncbi.nlm.nih.gov/23665771"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btt273","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt273","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/14/1718/48887988/bioinformatics_29_14_1718.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/29/14/1718/48887988/bioinformatics_29_14_1718.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5065453594","display_name":"Tanja Mago\u010d","orcid":null},"institutions":[{"id":"https://openalex.org/I126744593","display_name":"University of Maryland, Baltimore","ror":"https://ror.org/04rq5mt64","country_code":"US","type":"education","lineage":["https://openalex.org/I126744593"]},{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["AT","US"],"is_corresponding":false,"raw_author_name":"Tanja Magoc","raw_affiliation_strings":["1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA","institution_ids":["https://openalex.org/I126744593","https://openalex.org/I143397708","https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5089456984","display_name":"Stephan Pabinger","orcid":"https://orcid.org/0000-0001-9876-5965"},"institutions":[{"id":"https://openalex.org/I126744593","display_name":"University of Maryland, Baltimore","ror":"https://ror.org/04rq5mt64","country_code":"US","type":"education","lineage":["https://openalex.org/I126744593"]},{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["AT","US"],"is_corresponding":false,"raw_author_name":"Stephan Pabinger","raw_affiliation_strings":["1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA","institution_ids":["https://openalex.org/I126744593","https://openalex.org/I143397708","https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055704933","display_name":"Stefan Canzar","orcid":"https://orcid.org/0000-0003-4719-8010"},"institutions":[{"id":"https://openalex.org/I126744593","display_name":"University of Maryland, Baltimore","ror":"https://ror.org/04rq5mt64","country_code":"US","type":"education","lineage":["https://openalex.org/I126744593"]},{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["AT","US"],"is_corresponding":false,"raw_author_name":"Stefan Canzar","raw_affiliation_strings":["1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA","institution_ids":["https://openalex.org/I126744593","https://openalex.org/I143397708","https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100757863","display_name":"Xinyue Liu","orcid":"https://orcid.org/0000-0001-7905-3831"},"institutions":[{"id":"https://openalex.org/I126744593","display_name":"University of Maryland, Baltimore","ror":"https://ror.org/04rq5mt64","country_code":"US","type":"education","lineage":["https://openalex.org/I126744593"]},{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["AT","US"],"is_corresponding":false,"raw_author_name":"Xinyue Liu","raw_affiliation_strings":["1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA","institution_ids":["https://openalex.org/I126744593","https://openalex.org/I143397708","https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5055753548","display_name":"Qi Su","orcid":"https://orcid.org/0000-0001-9100-387X"},"institutions":[{"id":"https://openalex.org/I126744593","display_name":"University of Maryland, Baltimore","ror":"https://ror.org/04rq5mt64","country_code":"US","type":"education","lineage":["https://openalex.org/I126744593"]},{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["AT","US"],"is_corresponding":false,"raw_author_name":"Qi Su","raw_affiliation_strings":["1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA","institution_ids":["https://openalex.org/I126744593","https://openalex.org/I143397708","https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5036638042","display_name":"Daniela Puiu","orcid":"https://orcid.org/0000-0002-2386-9265"},"institutions":[{"id":"https://openalex.org/I126744593","display_name":"University of Maryland, Baltimore","ror":"https://ror.org/04rq5mt64","country_code":"US","type":"education","lineage":["https://openalex.org/I126744593"]},{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["AT","US"],"is_corresponding":false,"raw_author_name":"Daniela Puiu","raw_affiliation_strings":["1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA","institution_ids":["https://openalex.org/I126744593","https://openalex.org/I143397708","https://openalex.org/I145311948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5032805931","display_name":"Luke J. Tallon","orcid":"https://orcid.org/0000-0002-4656-4480"},"institutions":[{"id":"https://openalex.org/I126744593","display_name":"University of Maryland, Baltimore","ror":"https://ror.org/04rq5mt64","country_code":"US","type":"education","lineage":["https://openalex.org/I126744593"]},{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["AT","US"],"is_corresponding":false,"raw_author_name":"Luke J. Tallon","raw_affiliation_strings":["1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA","institution_ids":["https://openalex.org/I126744593","https://openalex.org/I143397708","https://openalex.org/I145311948"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5010384159","display_name":"Steven L. Salzberg","orcid":"https://orcid.org/0000-0002-8859-7432"},"institutions":[{"id":"https://openalex.org/I126744593","display_name":"University of Maryland, Baltimore","ror":"https://ror.org/04rq5mt64","country_code":"US","type":"education","lineage":["https://openalex.org/I126744593"]},{"id":"https://openalex.org/I143397708","display_name":"Innsbruck Medical University","ror":"https://ror.org/03pt86f80","country_code":"AT","type":"education","lineage":["https://openalex.org/I143397708"]},{"id":"https://openalex.org/I145311948","display_name":"Johns Hopkins University","ror":"https://ror.org/00za53h95","country_code":"US","type":"education","lineage":["https://openalex.org/I145311948"]}],"countries":["AT","US"],"is_corresponding":true,"raw_author_name":"Steven L. Salzberg","raw_affiliation_strings":["1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"1 Center for Computational Biology, McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21025, USA, 2Division for Bioinformatics, Innsbruck Medical University, 6020 Innsbruck, Austria and 3Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD 21205, USA","institution_ids":["https://openalex.org/I126744593","https://openalex.org/I143397708","https://openalex.org/I145311948"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5010384159"],"corresponding_institution_ids":["https://openalex.org/I126744593","https://openalex.org/I143397708","https://openalex.org/I145311948"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":12.3819,"has_fulltext":true,"cited_by_count":158,"citation_normalized_percentile":{"value":0.99226862,"is_in_top_1_percent":true,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":100},"biblio":{"volume":"29","issue":"14","first_page":"1718","last_page":"1725"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.5239999890327454,"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":0.5239999890327454,"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":0.1582999974489212,"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"}},{"id":"https://openalex.org/T10120","display_name":"Bacterial Genetics and Biotechnology","score":0.08820000290870667,"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/computational-biology","display_name":"Computational biology","score":0.5841173529624939},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.5379410982131958},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.48696669936180115},{"id":"https://openalex.org/keywords/bacterial-genome-size","display_name":"Bacterial genome size","score":0.4249446392059326},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.4004170894622803},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.324485182762146},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.15481135249137878}],"concepts":[{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5841173529624939},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.5379410982131958},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.48696669936180115},{"id":"https://openalex.org/C3742359","wikidata":"https://www.wikidata.org/wiki/Q4839988","display_name":"Bacterial genome size","level":4,"score":0.4249446392059326},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.4004170894622803},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.324485182762146},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.15481135249137878}],"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":"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":"D015723","descriptor_name":"Gene Library","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015723","descriptor_name":"Gene Library","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015723","descriptor_name":"Gene Library","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":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":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017422","descriptor_name":"Sequence Analysis, DNA","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}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btt273","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt273","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/14/1718/48887988/bioinformatics_29_14_1718.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:23665771","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/23665771","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:epub.uni-regensburg.de:79634","is_oa":false,"landing_page_url":"https://epub.uni-regensburg.de/79634/","pdf_url":null,"source":{"id":"https://openalex.org/S4306401229","display_name":"University of Regensburg Publication Server (University of Regensburg)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I60668342","host_organization_name":"University of Regensburg","host_organization_lineage":["https://openalex.org/I60668342"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:europepmc.org:2698240","is_oa":true,"landing_page_url":"http://europepmc.org/articles/PMC3702249","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"","raw_type":"Text"},{"id":"pmh:oai:pubmedcentral.nih.gov:3702249","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/3702249","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btt273","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btt273","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/29/14/1718/48887988/bioinformatics_29_14_1718.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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G1582564464","display_name":null,"funder_award_id":"R01 GM083873","funder_id":"https://openalex.org/F4320337354","funder_display_name":"National Institute of General Medical Sciences"},{"id":"https://openalex.org/G1914338789","display_name":null,"funder_award_id":"R01-HG006677","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G4851847132","display_name":null,"funder_award_id":"HHSN272200900009C","funder_id":"https://openalex.org/F4320306085","funder_display_name":"U.S. Department of Health and Human Services"},{"id":"https://openalex.org/G552568885","display_name":null,"funder_award_id":"R01 HG006102","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G5617453427","display_name":null,"funder_award_id":"R01-HG006102","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G632460639","display_name":null,"funder_award_id":"HG006677","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"},{"id":"https://openalex.org/G702934506","display_name":null,"funder_award_id":"2009-35205-05209","funder_id":"https://openalex.org/F4320306114","funder_display_name":"U.S. Department of Agriculture"},{"id":"https://openalex.org/G7474151348","display_name":null,"funder_award_id":"2011-67009-30030","funder_id":"https://openalex.org/F4320332299","funder_display_name":"National Institute of Food and Agriculture"},{"id":"https://openalex.org/G7657707305","display_name":null,"funder_award_id":"2009-35205-05209","funder_id":"https://openalex.org/F4320332299","funder_display_name":"National Institute of Food and Agriculture"},{"id":"https://openalex.org/G7929101816","display_name":null,"funder_award_id":"R01 HG006677","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G7951958147","display_name":null,"funder_award_id":"R01-HG006677","funder_id":"https://openalex.org/F4320337348","funder_display_name":"National Human Genome Research Institute"},{"id":"https://openalex.org/G8358044430","display_name":null,"funder_award_id":"HHSN272200900009C","funder_id":"https://openalex.org/F4320337355","funder_display_name":"National Institute of Allergy and Infectious Diseases"}],"funders":[{"id":"https://openalex.org/F4320306085","display_name":"U.S. Department of Health and Human Services","ror":"https://ror.org/033jnv181"},{"id":"https://openalex.org/F4320306114","display_name":"U.S. Department of Agriculture","ror":"https://ror.org/01na82s61"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"},{"id":"https://openalex.org/F4320332299","display_name":"National Institute of Food and Agriculture","ror":"https://ror.org/05qx3fv49"},{"id":"https://openalex.org/F4320337348","display_name":"National Human Genome Research Institute","ror":"https://ror.org/00baak391"},{"id":"https://openalex.org/F4320337354","display_name":"National Institute of General Medical Sciences","ror":"https://ror.org/04q48ey07"},{"id":"https://openalex.org/F4320337355","display_name":"National Institute of Allergy and Infectious Diseases","ror":"https://ror.org/043z4tv69"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2127781493.pdf","grobid_xml":"https://content.openalex.org/works/W2127781493.grobid-xml"},"referenced_works_count":27,"referenced_works":["https://openalex.org/W1881605914","https://openalex.org/W1966822396","https://openalex.org/W1971403296","https://openalex.org/W2022986961","https://openalex.org/W2033531015","https://openalex.org/W2095685450","https://openalex.org/W2095841885","https://openalex.org/W2096634299","https://openalex.org/W2107282968","https://openalex.org/W2107772251","https://openalex.org/W2115501618","https://openalex.org/W2120457919","https://openalex.org/W2120902911","https://openalex.org/W2127768708","https://openalex.org/W2129933858","https://openalex.org/W2132787769","https://openalex.org/W2135361281","https://openalex.org/W2152073175","https://openalex.org/W2152331922","https://openalex.org/W2157068560","https://openalex.org/W2158714788","https://openalex.org/W2160969485","https://openalex.org/W2161546116","https://openalex.org/W2167719367","https://openalex.org/W2170551349","https://openalex.org/W2170747616","https://openalex.org/W6639372236"],"related_works":["https://openalex.org/W2889029343","https://openalex.org/W2079327011","https://openalex.org/W2056973287","https://openalex.org/W3111025641","https://openalex.org/W2061340009","https://openalex.org/W3202542829","https://openalex.org/W1965562485","https://openalex.org/W1956137100","https://openalex.org/W2340204314","https://openalex.org/W2046657386"],"abstract_inverted_index":{"MOTIVATION:":[0],"A":[1],"large":[2],"and":[3,19,110,114,139,161,168],"rapidly":[4],"growing":[5],"number":[6],"of":[7,31,46,61,82,107,116,158,163],"bacterial":[8,32,89,101,145],"organisms":[9],"have":[10],"been":[11],"sequenced":[12],"by":[13,125,136],"the":[14,44,59,80,112,117,122,132,156,170,174],"newest":[15],"sequencing":[16,21,47,65],"technologies.":[17],"Cheaper":[18],"faster":[20],"technologies":[22],"make":[23],"it":[24],"easy":[25],"to":[26,53,87,131],"generate":[27],"very":[28,127],"high":[29],"coverage":[30,164],"genomes,":[33],"but":[34],"these":[35],"advances":[36],"mean":[37],"that":[38,142,172],"DNA":[39],"preparation":[40],"costs":[41,55],"can":[42],"exceed":[43],"cost":[45],"for":[48,73],"small":[49],"genomes.":[50],"The":[51],"need":[52],"contain":[54],"often":[56],"results":[57,176],"in":[58,68],"creation":[60],"only":[62],"a":[63,92,104],"single":[64],"library,":[66],"which":[67],"turn":[69],"introduces":[70],"new":[71],"challenges":[72],"genome":[74,84],"assembly":[75,85,166],"methods.":[76],"RESULTS:":[77],"We":[78,120,153],"evaluated":[79],"ability":[81],"multiple":[83],"programs":[86],"assemble":[88],"genomes":[90],"from":[91],"single,":[93],"deep-coverage":[94],"library.":[95,152],"For":[96],"our":[97],"comparison,":[98],"we":[99,140],"chose":[100],"species":[102],"spanning":[103],"wide":[105],"range":[106],"GC":[108],"content":[109],"measured":[111,155],"contiguity":[113],"accuracy":[115],"resulting":[118],"assemblies.":[119],"compared":[121],"assemblies":[123,134,146],"produced":[124],"this":[126],"high-coverage,":[128],"one-library":[129],"strategy":[130],"best":[133,175],"created":[135],"two-library":[137],"sequencing,":[138],"found":[141],"remarkably":[143],"good":[144],"are":[147,186],"possible":[148],"with":[149,177],"just":[150],"one":[151],"also":[154],"effect":[157],"read":[159],"length":[160],"depth":[162],"on":[165],"quality":[167],"determined":[169],"values":[171],"provide":[173],"current":[178],"algorithms.":[179],"CONTACT:":[180],"salzberg@jhu.edu":[181],"SUPPLEMENTARY":[182],"INFORMATION:":[183],"Supplementary":[184],"data":[185],"available":[187],"at":[188],"Bioinformatics":[189],"online.":[190]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":2},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":8},{"year":2021,"cited_by_count":7},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":8},{"year":2018,"cited_by_count":15},{"year":2017,"cited_by_count":17},{"year":2016,"cited_by_count":27},{"year":2015,"cited_by_count":26},{"year":2014,"cited_by_count":31},{"year":2013,"cited_by_count":6}],"updated_date":"2026-07-22T07:51:19.307946","created_date":"2025-10-10T00:00:00"}