{"id":"https://openalex.org/W3004081071","doi":"https://doi.org/10.1186/s12859-019-3335-y","title":"PRAP: Pan Resistome analysis pipeline","display_name":"PRAP: Pan Resistome analysis pipeline","publication_year":2020,"publication_date":"2020-01-15","ids":{"openalex":"https://openalex.org/W3004081071","doi":"https://doi.org/10.1186/s12859-019-3335-y","mag":"3004081071","pmid":"https://pubmed.ncbi.nlm.nih.gov/31941435"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-019-3335-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-3335-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3335-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3335-y","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5033758211","display_name":"Yichen He","orcid":"https://orcid.org/0000-0003-3464-7526"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Yichen He","raw_affiliation_strings":["Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101533854","display_name":"Xiujuan Zhou","orcid":"https://orcid.org/0000-0002-4019-1214"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xiujuan Zhou","raw_affiliation_strings":["Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5101820623","display_name":"Ziyan Chen","orcid":"https://orcid.org/0000-0003-1406-8068"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ziyan Chen","raw_affiliation_strings":["Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5031249202","display_name":"Xiangyu Deng","orcid":"https://orcid.org/0000-0002-7251-2529"},"institutions":[{"id":"https://openalex.org/I165733156","display_name":"University of Georgia","ror":"https://ror.org/00te3t702","country_code":"US","type":"education","lineage":["https://openalex.org/I165733156"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Xiangyu Deng","raw_affiliation_strings":["Center for Food Safety, Department of Food Science and Technology, University of Georgia, Griffin, GA, 30223, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Food Safety, Department of Food Science and Technology, University of Georgia, Griffin, GA, 30223, USA","institution_ids":["https://openalex.org/I165733156"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069734507","display_name":"Andrew Gehring","orcid":null},"institutions":[{"id":"https://openalex.org/I1312222531","display_name":"Agricultural Research Service","ror":"https://ror.org/02d2m2044","country_code":"US","type":"government","lineage":["https://openalex.org/I1312222531","https://openalex.org/I1336096307"]},{"id":"https://openalex.org/I1336096307","display_name":"United States Department of Agriculture","ror":"https://ror.org/01na82s61","country_code":"US","type":"government","lineage":["https://openalex.org/I1336096307"]},{"id":"https://openalex.org/I4210147002","display_name":"Eastern Regional Research Center","ror":"https://ror.org/052v5pn20","country_code":"US","type":"facility","lineage":["https://openalex.org/I1312222531","https://openalex.org/I1336096307","https://openalex.org/I4210138094","https://openalex.org/I4210147002"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Andrew Gehring","raw_affiliation_strings":["United States Department of Agriculture, Agricultural Research Service, Eastern Regional Research Center, 600 East Mermaid Lane, Wyndmoor, PA, 19038, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"United States Department of Agriculture, Agricultural Research Service, Eastern Regional Research Center, 600 East Mermaid Lane, Wyndmoor, PA, 19038, USA","institution_ids":["https://openalex.org/I4210147002","https://openalex.org/I1336096307","https://openalex.org/I1312222531"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5060391370","display_name":"Hong\u2010Yu Ou","orcid":"https://orcid.org/0000-0001-9439-1660"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Hongyu Ou","raw_affiliation_strings":["Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5072931223","display_name":"Lida Zhang","orcid":"https://orcid.org/0000-0002-5207-2458"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Lida Zhang","raw_affiliation_strings":["Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China","institution_ids":["https://openalex.org/I183067930"]}]},{"author_position":"last","author":{"id":null,"display_name":"Xianming Shi","orcid":"https://orcid.org/0000-0002-8929-4054"},"institutions":[{"id":"https://openalex.org/I183067930","display_name":"Shanghai Jiao Tong University","ror":"https://ror.org/0220qvk04","country_code":"CN","type":"education","lineage":["https://openalex.org/I183067930"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xianming Shi","raw_affiliation_strings":["Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China. xmshi@sjtu.edu.cn","Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China"],"raw_orcid":"https://orcid.org/0000-0002-8929-4054","affiliations":[{"raw_affiliation_string":"Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China. xmshi@sjtu.edu.cn","institution_ids":["https://openalex.org/I183067930"]},{"raw_affiliation_string":"Department of Food Science and Technology, MOST-USDA Joint Research Center for Food Safety, School of Agriculture & Biology, and State Key Lab of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China","institution_ids":["https://openalex.org/I183067930"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":8,"corresponding_author_ids":["https://openalex.org/A5033758211"],"corresponding_institution_ids":["https://openalex.org/I183067930"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.8835,"has_fulltext":true,"cited_by_count":22,"citation_normalized_percentile":{"value":0.66932021,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"21","issue":"1","first_page":"20","last_page":"20"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10147","display_name":"Antibiotic Resistance in Bacteria","score":0.39890000224113464,"subfield":{"id":"https://openalex.org/subfields/1313","display_name":"Molecular Medicine"},"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/T10147","display_name":"Antibiotic Resistance in Bacteria","score":0.39890000224113464,"subfield":{"id":"https://openalex.org/subfields/1313","display_name":"Molecular Medicine"},"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/T10486","display_name":"Salmonella and Campylobacter epidemiology","score":0.20520000159740448,"subfield":{"id":"https://openalex.org/subfields/1106","display_name":"Food Science"},"field":{"id":"https://openalex.org/fields/11","display_name":"Agricultural and Biological Sciences"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10419","display_name":"Pharmaceutical and Antibiotic Environmental Impacts","score":0.13289999961853027,"subfield":{"id":"https://openalex.org/subfields/2310","display_name":"Pollution"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/resistome","display_name":"Resistome","score":0.9837907552719116},{"id":"https://openalex.org/keywords/genome","display_name":"Genome","score":0.6876248717308044},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.6675615310668945},{"id":"https://openalex.org/keywords/antibiotic-resistance","display_name":"Antibiotic resistance","score":0.5630689859390259},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5462372899055481},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.49557721614837646},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.4784146249294281},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.36142420768737793},{"id":"https://openalex.org/keywords/antibiotics","display_name":"Antibiotics","score":0.2539043426513672},{"id":"https://openalex.org/keywords/mobile-genetic-elements","display_name":"Mobile genetic elements","score":0.203681081533432},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.09742236137390137}],"concepts":[{"id":"https://openalex.org/C2776666601","wikidata":"https://www.wikidata.org/wiki/Q3457855","display_name":"Resistome","level":5,"score":0.9837907552719116},{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.6876248717308044},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.6675615310668945},{"id":"https://openalex.org/C94665300","wikidata":"https://www.wikidata.org/wiki/Q63391344","display_name":"Antibiotic resistance","level":3,"score":0.5630689859390259},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5462372899055481},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.49557721614837646},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.4784146249294281},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.36142420768737793},{"id":"https://openalex.org/C501593827","wikidata":"https://www.wikidata.org/wiki/Q12187","display_name":"Antibiotics","level":2,"score":0.2539043426513672},{"id":"https://openalex.org/C132533263","wikidata":"https://www.wikidata.org/wiki/Q2347362","display_name":"Mobile genetic elements","level":4,"score":0.203681081533432},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.09742236137390137}],"mesh":[{"descriptor_ui":"D000073336","descriptor_name":"Whole Genome Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000073336","descriptor_name":"Whole Genome Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000073336","descriptor_name":"Whole Genome Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002681","descriptor_name":"China","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002681","descriptor_name":"China","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D002681","descriptor_name":"China","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D004352","descriptor_name":"Drug Resistance, Microbial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004352","descriptor_name":"Drug Resistance, Microbial","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D004352","descriptor_name":"Drug Resistance, Microbial","qualifier_ui":"Q000235","qualifier_name":"genetics","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":"D019779","descriptor_name":"Salmonella enterica","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019779","descriptor_name":"Salmonella enterica","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D019779","descriptor_name":"Salmonella enterica","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-019-3335-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-3335-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3335-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31941435","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31941435","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:d619ffe9e4e14cb8a756e8d1b97c5eb1","is_oa":false,"landing_page_url":"https://doaj.org/article/d619ffe9e4e14cb8a756e8d1b97c5eb1","pdf_url":null,"source":{"id":"https://openalex.org/S4306401280","display_name":"DOAJ (DOAJ: Directory of Open Access Journals)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 21, Iss 1, Pp 1-8 (2020)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:6964052","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/6964052","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":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-019-3335-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-019-3335-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-019-3335-y","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"score":0.7799999713897705,"display_name":"Life in Land","id":"https://metadata.un.org/sdg/15"}],"awards":[{"id":"https://openalex.org/G5670602493","display_name":null,"funder_award_id":"31601562","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G5772270137","display_name":null,"funder_award_id":"2017YFC1601200","funder_id":"https://openalex.org/F4320321001","funder_display_name":"National Natural Science Foundation of China"},{"id":"https://openalex.org/G6475099539","display_name":null,"funder_award_id":"2017YFC1601200","funder_id":"https://openalex.org/F4320335774","funder_display_name":"Key Technologies Research and Development Program"}],"funders":[{"id":"https://openalex.org/F4320321001","display_name":"National Natural Science Foundation of China","ror":"https://ror.org/01h0zpd94"},{"id":"https://openalex.org/F4320335774","display_name":"Key Technologies Research and Development Program","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3004081071.pdf","grobid_xml":"https://content.openalex.org/works/W3004081071.grobid-xml"},"referenced_works_count":22,"referenced_works":["https://openalex.org/W1973487717","https://openalex.org/W1974531793","https://openalex.org/W2008274231","https://openalex.org/W2047908973","https://openalex.org/W2052426953","https://openalex.org/W2093610003","https://openalex.org/W2101862832","https://openalex.org/W2118688136","https://openalex.org/W2134852597","https://openalex.org/W2140353364","https://openalex.org/W2143992254","https://openalex.org/W2150550043","https://openalex.org/W2153148746","https://openalex.org/W2460324897","https://openalex.org/W2528399578","https://openalex.org/W2544493586","https://openalex.org/W2559133556","https://openalex.org/W2572540562","https://openalex.org/W2610331568","https://openalex.org/W2782987161","https://openalex.org/W2804136379","https://openalex.org/W2807938045"],"related_works":["https://openalex.org/W2019760897","https://openalex.org/W2901360474","https://openalex.org/W3132280623","https://openalex.org/W4200119511","https://openalex.org/W2606692795","https://openalex.org/W2600203898","https://openalex.org/W2517654658","https://openalex.org/W2945765942","https://openalex.org/W3009870304","https://openalex.org/W3044964209"],"abstract_inverted_index":{"BACKGROUND:":[0],"Antibiotic":[1],"resistance":[2,78,114,184],"genes":[3,79,185],"(ARGs)":[4],"can":[5],"spread":[6],"among":[7],"pathogens":[8],"via":[9],"horizontal":[10],"gene":[11],"transfer,":[12],"resulting":[13],"in":[14,16,127],"imparities":[15],"their":[17,187],"distribution":[18,39],"even":[19],"within":[20,40],"the":[21,61,73,89,139,145,175],"same":[22],"species.":[23],"Therefore,":[24],"a":[25,118,132],"pan-genome":[26,54],"approach":[27],"to":[28,59,98,112,177],"analyzing":[29,144],"resistomes":[30],"is":[31],"necessary":[32],"for":[33,49,72,159],"thoroughly":[34],"characterizing":[35],"patterns":[36],"of":[37,76,83,105,109,123,134,141,147,170],"ARGs":[38,51,161],"particular":[41],"pathogen":[42],"populations.":[43],"Software":[44],"tools":[45],"are":[46],"readily":[47],"available":[48],"either":[50],"identification":[52,75],"or":[53,91],"analysis,":[55],"but":[56],"few":[57],"exist":[58],"combine":[60],"two":[62],"functions.":[63],"RESULTS:":[64],"We":[65,137],"developed":[66],"Pan":[67],"Resistome":[68],"Analysis":[69],"Pipeline":[70],"(PRAP)":[71],"rapid":[74],"antibiotic":[77,113,183],"from":[80,152],"various":[81],"formats":[82],"whole":[84],"genome":[85],"sequences":[86],"based":[87],"on":[88],"CARD":[90],"ResFinder":[92],"databases.":[93],"Detailed":[94],"annotations":[95],"were":[96,125],"used":[97],"analyze":[99],"pan-resistome":[100,164],"features":[101],"and":[102,162,186],"characterize":[103],"distributions":[104],"ARGs.":[106,171],"The":[107],"contribution":[108],"different":[110],"alleles":[111],"was":[115,157],"predicted":[116],"by":[117,143],"random":[119],"forest":[120],"classifier.":[121],"Results":[122],"analysis":[124],"presented":[126],"browsable":[128],"files":[129],"along":[130],"with":[131],"variety":[133],"visualization":[135],"options.":[136],"demonstrated":[138],"performance":[140],"PRAP":[142,156],"genomes":[146],"26":[148],"Salmonella":[149],"enterica":[150],"isolates":[151],"Shanghai,":[153],"China.":[154],"CONCLUSIONS:":[155],"effective":[158],"identifying":[160],"visualizing":[163],"features,":[165],"therefore":[166],"facilitating":[167],"pan-genomic":[168],"investigation":[169],"This":[172],"tool":[173],"has":[174],"ability":[176],"further":[178],"excavate":[179],"potential":[180],"relationships":[181],"between":[182],"phenotypic":[188],"traits.":[189]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":6},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":2},{"year":2012,"cited_by_count":1}],"updated_date":"2026-05-21T09:19:25.381259","created_date":"2025-10-10T00:00:00"}