{"id":"https://openalex.org/W2808736912","doi":"https://doi.org/10.1093/bioinformatics/bty510","title":"MetaPOAP: presence or absence of metabolic pathways in metagenome-assembled genomes","display_name":"MetaPOAP: presence or absence of metabolic pathways in metagenome-assembled genomes","publication_year":2018,"publication_date":"2018-06-20","ids":{"openalex":"https://openalex.org/W2808736912","doi":"https://doi.org/10.1093/bioinformatics/bty510","mag":"2808736912","pmid":"https://pubmed.ncbi.nlm.nih.gov/29939199"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty510","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty510","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/24/4284/48921014/bioinformatics_34_24_4284.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/34/24/4284/48921014/bioinformatics_34_24_4284.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5056341039","display_name":"Lewis M. Ward","orcid":"https://orcid.org/0000-0002-9290-2567"},"institutions":[{"id":"https://openalex.org/I1302918504","display_name":"Planetary Science Institute","ror":"https://ror.org/05vvg9554","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1302918504"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Lewis M Ward","raw_affiliation_strings":["Department of Earth and Planetary Sciences, Harvard University, Cambridge, MA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Earth and Planetary Sciences, Harvard University, Cambridge, MA, USA","institution_ids":["https://openalex.org/I1302918504","https://openalex.org/I136199984"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5073914365","display_name":"Patrick M. Shih","orcid":"https://orcid.org/0000-0002-2119-3345"},"institutions":[{"id":"https://openalex.org/I148283060","display_name":"Lawrence Berkeley National Laboratory","ror":"https://ror.org/02jbv0t02","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I148283060","https://openalex.org/I39565521"]},{"id":"https://openalex.org/I53012624","display_name":"Joint BioEnergy Institute","ror":"https://ror.org/03ww55028","country_code":"US","type":"facility","lineage":["https://openalex.org/I1330989302","https://openalex.org/I53012624"]},{"id":"https://openalex.org/I84218800","display_name":"University of California, Davis","ror":"https://ror.org/05rrcem69","country_code":"US","type":"education","lineage":["https://openalex.org/I84218800"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Patrick M Shih","raw_affiliation_strings":["Department of Plant Biology, University of California, Davis, CA, USA","Environmental Genomics and Systems Biology Division, E O Lawrence Berkeley National Laboratory, Berkeley, CA","Feedstocks Division, Joint Bioenergy Institute, Emeryville, CA"],"affiliations":[{"raw_affiliation_string":"Department of Plant Biology, University of California, Davis, CA, USA","institution_ids":["https://openalex.org/I84218800"]},{"raw_affiliation_string":"Environmental Genomics and Systems Biology Division, E O Lawrence Berkeley National Laboratory, Berkeley, CA","institution_ids":["https://openalex.org/I148283060"]},{"raw_affiliation_string":"Feedstocks Division, Joint Bioenergy Institute, Emeryville, CA","institution_ids":["https://openalex.org/I53012624"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5034777144","display_name":"Woodward W. Fischer","orcid":"https://orcid.org/0000-0002-8836-3054"},"institutions":[{"id":"https://openalex.org/I122411786","display_name":"California Institute of Technology","ror":"https://ror.org/05dxps055","country_code":"US","type":"education","lineage":["https://openalex.org/I122411786"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Woodward W Fischer","raw_affiliation_strings":["Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, USA"],"affiliations":[{"raw_affiliation_string":"Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, CA, USA","institution_ids":["https://openalex.org/I122411786"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5056341039"],"corresponding_institution_ids":["https://openalex.org/I1302918504","https://openalex.org/I136199984"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":3.1649,"has_fulltext":true,"cited_by_count":48,"citation_normalized_percentile":{"value":0.92828572,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":91,"max":99},"biblio":{"volume":"34","issue":"24","first_page":"4284","last_page":"4286"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9998000264167786,"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":0.9998000264167786,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9968000054359436,"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/T10171","display_name":"Biofuel production and bioconversion","score":0.9912999868392944,"subfield":{"id":"https://openalex.org/subfields/2204","display_name":"Biomedical Engineering"},"field":{"id":"https://openalex.org/fields/22","display_name":"Engineering"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/metagenomics","display_name":"Metagenomics","score":0.9624661803245544},{"id":"https://openalex.org/keywords/python","display_name":"Python (programming language)","score":0.7581872940063477},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.7301461100578308},{"id":"https://openalex.org/keywords/scripting-language","display_name":"Scripting language","score":0.6745365858078003},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.623796820640564},{"id":"https://openalex.org/keywords/shotgun-sequencing","display_name":"Shotgun sequencing","score":0.6109395623207092},{"id":"https://openalex.org/keywords/shotgun","display_name":"Shotgun","score":0.5962488055229187},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.45037519931793213},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.43380600214004517},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.24518346786499023},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.21802788972854614},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.11719080805778503}],"concepts":[{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.9624661803245544},{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.7581872940063477},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.7301461100578308},{"id":"https://openalex.org/C61423126","wikidata":"https://www.wikidata.org/wiki/Q187432","display_name":"Scripting language","level":2,"score":0.6745365858078003},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.623796820640564},{"id":"https://openalex.org/C101985253","wikidata":"https://www.wikidata.org/wiki/Q1073526","display_name":"Shotgun sequencing","level":4,"score":0.6109395623207092},{"id":"https://openalex.org/C2781434637","wikidata":"https://www.wikidata.org/wiki/Q486396","display_name":"Shotgun","level":3,"score":0.5962488055229187},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.45037519931793213},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.43380600214004517},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.24518346786499023},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.21802788972854614},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.11719080805778503}],"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":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D053858","descriptor_name":"Metabolic Networks and Pathways","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":true},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D064349","descriptor_name":"Genome, Microbial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D064349","descriptor_name":"Genome, Microbial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D064349","descriptor_name":"Genome, Microbial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/bty510","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty510","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/24/4284/48921014/bioinformatics_34_24_4284.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:29939199","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29939199","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:authors.library.caltech.edu:87509","is_oa":false,"landing_page_url":"https://resolver.caltech.edu/CaltechAUTHORS:20180702-091627832","pdf_url":null,"source":{"id":"https://openalex.org/S4306402161","display_name":"CaltechAUTHORS (California Institute of Technology)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I122411786","host_organization_name":"California Institute of Technology","host_organization_lineage":["https://openalex.org/I122411786"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"Article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/bty510","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty510","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/24/4284/48921014/bioinformatics_34_24_4284.pdf","source":{"id":"https://openalex.org/S52395412","display_name":"Bioinformatics","issn_l":"1367-4803","issn":["1367-4803","1367-4811"],"is_oa":false,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311648","host_organization_name":"Oxford University Press","host_organization_lineage":["https://openalex.org/P4310311648","https://openalex.org/P4310311647"],"host_organization_lineage_names":["Oxford University Press","University of Oxford"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3935730932","display_name":null,"funder_award_id":"NNX16AJ57G","funder_id":"https://openalex.org/F4320306101","funder_display_name":"National Aeronautics and Space Administration"},{"id":"https://openalex.org/G4915103637","display_name":null,"funder_award_id":"Exobiology","funder_id":"https://openalex.org/F4320306101","funder_display_name":"National Aeronautics and Space Administration"}],"funders":[{"id":"https://openalex.org/F4320306079","display_name":"David and Lucile Packard Foundation","ror":"https://ror.org/032atxq54"},{"id":"https://openalex.org/F4320306101","display_name":"National Aeronautics and Space Administration","ror":"https://ror.org/027ka1x80"},{"id":"https://openalex.org/F4320311180","display_name":"Agouron Institute","ror":"https://ror.org/05vmwhp17"},{"id":"https://openalex.org/F4320321652","display_name":"Eidgen\u00f6ssische Technische Hochschule Z\u00fcrich","ror":"https://ror.org/05a28rw58"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2808736912.pdf","grobid_xml":"https://content.openalex.org/works/W2808736912.grobid-xml"},"referenced_works_count":12,"referenced_works":["https://openalex.org/W2004548026","https://openalex.org/W2112364185","https://openalex.org/W2142961247","https://openalex.org/W2143485490","https://openalex.org/W2745006471","https://openalex.org/W2753961085","https://openalex.org/W2787022622","https://openalex.org/W2787636346","https://openalex.org/W2789511815","https://openalex.org/W2789911588","https://openalex.org/W4239833133","https://openalex.org/W6748714289"],"related_works":["https://openalex.org/W3023169329","https://openalex.org/W4389470870","https://openalex.org/W2782165897","https://openalex.org/W3043668926","https://openalex.org/W4389452281","https://openalex.org/W3036436206","https://openalex.org/W3194449900","https://openalex.org/W3111832393","https://openalex.org/W4321764688","https://openalex.org/W4226340145"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":5},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":13},{"year":2020,"cited_by_count":13},{"year":2019,"cited_by_count":6},{"year":2018,"cited_by_count":2}],"updated_date":"2026-04-10T15:06:20.359241","created_date":"2025-10-10T00:00:00"}
