{"id":"https://openalex.org/W3180103248","doi":"https://doi.org/10.1186/s12859-021-04004-y","title":"HOME-BIO (sHOtgun MEtagenomic analysis of BIOlogical entities): a specific and comprehensive pipeline for metagenomic shotgun sequencing data analysis","display_name":"HOME-BIO (sHOtgun MEtagenomic analysis of BIOlogical entities): a specific and comprehensive pipeline for metagenomic shotgun sequencing data analysis","publication_year":2021,"publication_date":"2021-07-01","ids":{"openalex":"https://openalex.org/W3180103248","doi":"https://doi.org/10.1186/s12859-021-04004-y","mag":"3180103248","pmid":"https://pubmed.ncbi.nlm.nih.gov/34225648"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-021-04004-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04004-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04004-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":"review","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04004-y","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5090185107","display_name":"Carlo Ferravante","orcid":"https://orcid.org/0000-0003-0758-5059"},"institutions":[{"id":"https://openalex.org/I131729948","display_name":"University of Salerno","ror":"https://ror.org/0192m2k53","country_code":"IT","type":"education","lineage":["https://openalex.org/I131729948"]},{"id":"https://openalex.org/I4210129787","display_name":"Genomix Biotech (India)","ror":"https://ror.org/03q5zq793","country_code":"IN","type":"company","lineage":["https://openalex.org/I4210129787"]},{"id":"https://openalex.org/I71267560","display_name":"University of Naples Federico II","ror":"https://ror.org/05290cv24","country_code":"IT","type":"education","lineage":["https://openalex.org/I71267560"]}],"countries":["IN","IT"],"is_corresponding":false,"raw_author_name":"Carlo Ferravante","raw_affiliation_strings":["Department of Veterinary Medicine and Animal Production, University of Naples Federico II, Via Delpino 1, 80137, Naples, Italy","Genomix4Life, via S. Allende 43/L, 84081, Baronissi, SA, Italy","Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Veterinary Medicine and Animal Production, University of Naples Federico II, Via Delpino 1, 80137, Naples, Italy","institution_ids":["https://openalex.org/I71267560"]},{"raw_affiliation_string":"Genomix4Life, via S. Allende 43/L, 84081, Baronissi, SA, Italy","institution_ids":["https://openalex.org/I4210129787"]},{"raw_affiliation_string":"Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy","institution_ids":["https://openalex.org/I131729948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024644508","display_name":"Domenico Memoli","orcid":"https://orcid.org/0000-0001-5290-2709"},"institutions":[{"id":"https://openalex.org/I131729948","display_name":"University of Salerno","ror":"https://ror.org/0192m2k53","country_code":"IT","type":"education","lineage":["https://openalex.org/I131729948"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Domenico Memoli","raw_affiliation_strings":["Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy","institution_ids":["https://openalex.org/I131729948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5018679325","display_name":"Domenico Palumbo","orcid":"https://orcid.org/0000-0001-5878-9428"},"institutions":[{"id":"https://openalex.org/I131729948","display_name":"University of Salerno","ror":"https://ror.org/0192m2k53","country_code":"IT","type":"education","lineage":["https://openalex.org/I131729948"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Domenico Palumbo","raw_affiliation_strings":["Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy","institution_ids":["https://openalex.org/I131729948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5013617457","display_name":"Paolo Ciaramella","orcid":"https://orcid.org/0000-0002-5518-5378"},"institutions":[{"id":"https://openalex.org/I71267560","display_name":"University of Naples Federico II","ror":"https://ror.org/05290cv24","country_code":"IT","type":"education","lineage":["https://openalex.org/I71267560"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Paolo Ciaramella","raw_affiliation_strings":["Department of Veterinary Medicine and Animal Production, University of Naples Federico II, Via Delpino 1, 80137, Naples, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Veterinary Medicine and Animal Production, University of Naples Federico II, Via Delpino 1, 80137, Naples, Italy","institution_ids":["https://openalex.org/I71267560"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5064751316","display_name":"Antonio Di Loria","orcid":"https://orcid.org/0000-0001-6947-0287"},"institutions":[{"id":"https://openalex.org/I71267560","display_name":"University of Naples Federico II","ror":"https://ror.org/05290cv24","country_code":"IT","type":"education","lineage":["https://openalex.org/I71267560"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Antonio Di Loria","raw_affiliation_strings":["Department of Veterinary Medicine and Animal Production, University of Naples Federico II, Via Delpino 1, 80137, Naples, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Veterinary Medicine and Animal Production, University of Naples Federico II, Via Delpino 1, 80137, Naples, Italy","institution_ids":["https://openalex.org/I71267560"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5069866434","display_name":"Ylenia D\u2019Agostino","orcid":"https://orcid.org/0000-0002-1890-6682"},"institutions":[{"id":"https://openalex.org/I131729948","display_name":"University of Salerno","ror":"https://ror.org/0192m2k53","country_code":"IT","type":"education","lineage":["https://openalex.org/I131729948"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Ylenia D\u2019Agostino","raw_affiliation_strings":["Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy","institution_ids":["https://openalex.org/I131729948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5050045829","display_name":"Giovanni Nassa","orcid":"https://orcid.org/0000-0001-7453-1240"},"institutions":[{"id":"https://openalex.org/I131729948","display_name":"University of Salerno","ror":"https://ror.org/0192m2k53","country_code":"IT","type":"education","lineage":["https://openalex.org/I131729948"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Giovanni Nassa","raw_affiliation_strings":["Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy","institution_ids":["https://openalex.org/I131729948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076810301","display_name":"Francesca Rizzo","orcid":"https://orcid.org/0000-0003-1783-5015"},"institutions":[{"id":"https://openalex.org/I131729948","display_name":"University of Salerno","ror":"https://ror.org/0192m2k53","country_code":"IT","type":"education","lineage":["https://openalex.org/I131729948"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Francesca Rizzo","raw_affiliation_strings":["Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy","institution_ids":["https://openalex.org/I131729948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5009028518","display_name":"Roberta Tarallo","orcid":"https://orcid.org/0000-0001-9668-3632"},"institutions":[{"id":"https://openalex.org/I131729948","display_name":"University of Salerno","ror":"https://ror.org/0192m2k53","country_code":"IT","type":"education","lineage":["https://openalex.org/I131729948"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Roberta Tarallo","raw_affiliation_strings":["Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy","institution_ids":["https://openalex.org/I131729948"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061245348","display_name":"Alessandro Weisz","orcid":"https://orcid.org/0000-0003-0455-2083"},"institutions":[{"id":"https://openalex.org/I131729948","display_name":"University of Salerno","ror":"https://ror.org/0192m2k53","country_code":"IT","type":"education","lineage":["https://openalex.org/I131729948"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Alessandro Weisz","raw_affiliation_strings":["CRGS - Genome Research Center for Health, University of Salerno Campus of Medicine, 84081, Baronissi, SA, Italy. aweisz@unisa.it","Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy. aweisz@unisa.it","Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"CRGS - Genome Research Center for Health, University of Salerno Campus of Medicine, 84081, Baronissi, SA, Italy. aweisz@unisa.it","institution_ids":["https://openalex.org/I131729948"]},{"raw_affiliation_string":"Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy. aweisz@unisa.it","institution_ids":["https://openalex.org/I131729948"]},{"raw_affiliation_string":"Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy","institution_ids":["https://openalex.org/I131729948"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5085978275","display_name":"Giorgio Giurato","orcid":"https://orcid.org/0000-0002-0538-8978"},"institutions":[{"id":"https://openalex.org/I131729948","display_name":"University of Salerno","ror":"https://ror.org/0192m2k53","country_code":"IT","type":"education","lineage":["https://openalex.org/I131729948"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Giorgio Giurato","raw_affiliation_strings":["Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy. ggiurato@unisa.it","Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy"],"raw_orcid":"https://orcid.org/0000-0002-0538-8978","affiliations":[{"raw_affiliation_string":"Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy. ggiurato@unisa.it","institution_ids":["https://openalex.org/I131729948"]},{"raw_affiliation_string":"Laboratory of Molecular Medicine and Genomics, Department of Medicine, Surgery and Dentistry 'Scuola Medica Salernitana', University of Salerno, Via S. Allende, 1, 84081, Baronissi, SA, Italy","institution_ids":["https://openalex.org/I131729948"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":11,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.977,"has_fulltext":true,"cited_by_count":17,"citation_normalized_percentile":{"value":0.74463896,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":94,"max":99},"biblio":{"volume":"22","issue":"S7","first_page":"106","last_page":"106"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.8791000247001648,"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":0.8791000247001648,"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":0.019200000911951065,"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/T11791","display_name":"Microbial Community Ecology and Physiology","score":0.015799999237060547,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/metagenomics","display_name":"Metagenomics","score":0.9250273108482361},{"id":"https://openalex.org/keywords/shotgun","display_name":"Shotgun","score":0.7154525518417358},{"id":"https://openalex.org/keywords/shotgun-sequencing","display_name":"Shotgun sequencing","score":0.708995521068573},{"id":"https://openalex.org/keywords/identification","display_name":"Identification (biology)","score":0.6892859935760498},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6607089638710022},{"id":"https://openalex.org/keywords/pipeline","display_name":"Pipeline (software)","score":0.6342995762825012},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.45051589608192444},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.4464586675167084},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.4204285442829132},{"id":"https://openalex.org/keywords/dna-sequencing","display_name":"DNA sequencing","score":0.30506375432014465},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.23838496208190918},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.07813715934753418}],"concepts":[{"id":"https://openalex.org/C15151743","wikidata":"https://www.wikidata.org/wiki/Q903778","display_name":"Metagenomics","level":3,"score":0.9250273108482361},{"id":"https://openalex.org/C2781434637","wikidata":"https://www.wikidata.org/wiki/Q486396","display_name":"Shotgun","level":3,"score":0.7154525518417358},{"id":"https://openalex.org/C101985253","wikidata":"https://www.wikidata.org/wiki/Q1073526","display_name":"Shotgun sequencing","level":4,"score":0.708995521068573},{"id":"https://openalex.org/C116834253","wikidata":"https://www.wikidata.org/wiki/Q2039217","display_name":"Identification (biology)","level":2,"score":0.6892859935760498},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6607089638710022},{"id":"https://openalex.org/C43521106","wikidata":"https://www.wikidata.org/wiki/Q2165493","display_name":"Pipeline (software)","level":2,"score":0.6342995762825012},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.45051589608192444},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.4464586675167084},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.4204285442829132},{"id":"https://openalex.org/C51679486","wikidata":"https://www.wikidata.org/wiki/Q380546","display_name":"DNA sequencing","level":3,"score":0.30506375432014465},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.23838496208190918},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.07813715934753418},{"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/C59822182","wikidata":"https://www.wikidata.org/wiki/Q441","display_name":"Botany","level":1,"score":0.0},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0},{"id":"https://openalex.org/C552990157","wikidata":"https://www.wikidata.org/wiki/Q7430","display_name":"DNA","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000078332","descriptor_name":"Data Analysis","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D054892","descriptor_name":"Metagenome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056186","descriptor_name":"Metagenomics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D059014","descriptor_name":"High-Throughput Nucleotide Sequencing","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-021-04004-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04004-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04004-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:34225648","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/34225648","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:b11fdb3e28b24f0fbf57860539d26bb8","is_oa":true,"landing_page_url":"https://doaj.org/article/b11fdb3e28b24f0fbf57860539d26bb8","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":"cc-by-sa","license_id":"https://openalex.org/licenses/cc-by-sa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"BMC Bioinformatics, Vol 22, Iss S7, Pp 1-10 (2021)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:8256542","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/8256542","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/s12859-021-04004-y","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-021-04004-y","pdf_url":"https://bmcbioinformatics.biomedcentral.com/track/pdf/10.1186/s12859-021-04004-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":[],"awards":[{"id":"https://openalex.org/G2369709335","display_name":null,"funder_award_id":"2014/2020","funder_id":"https://openalex.org/F4320322218","funder_display_name":"Regione Campania"},{"id":"https://openalex.org/G2644517642","display_name":null,"funder_award_id":"B41C17000080007","funder_id":"https://openalex.org/F4320322218","funder_display_name":"Regione Campania"},{"id":"https://openalex.org/G273606548","display_name":null,"funder_award_id":"B63D18000380007","funder_id":"https://openalex.org/F4320322218","funder_display_name":"Regione Campania"},{"id":"https://openalex.org/G3342569318","display_name":null,"funder_award_id":"2014/2020","funder_id":"https://openalex.org/F4320335322","funder_display_name":"European Regional Development Fund"},{"id":"https://openalex.org/G5634946813","display_name":null,"funder_award_id":"2014-2020","funder_id":"https://openalex.org/F4320335322","funder_display_name":"European Regional Development Fund"},{"id":"https://openalex.org/G6561142798","display_name":null,"funder_award_id":"FESR 2014/2020","funder_id":"https://openalex.org/F4320335322","funder_display_name":"European Regional Development Fund"},{"id":"https://openalex.org/G8424219435","display_name":null,"funder_award_id":"azione 1.5; CUP: B41C17000080007","funder_id":"https://openalex.org/F4320322218","funder_display_name":"Regione Campania"},{"id":"https://openalex.org/G8829301412","display_name":null,"funder_award_id":"FESR 2014/2020","funder_id":"https://openalex.org/F4320322218","funder_display_name":"Regione Campania"}],"funders":[{"id":"https://openalex.org/F4320322218","display_name":"Regione Campania","ror":"https://ror.org/02kg21794"},{"id":"https://openalex.org/F4320324133","display_name":"Universit\u00e0 degli Studi di Salerno","ror":"https://ror.org/0192m2k53"},{"id":"https://openalex.org/F4320331528","display_name":"Ministero dell'Universit\u00e0 e della Ricerca","ror":null},{"id":"https://openalex.org/F4320335322","display_name":"European Regional Development Fund","ror":"https://ror.org/00k4n6c32"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3180103248.pdf","grobid_xml":"https://content.openalex.org/works/W3180103248.grobid-xml"},"referenced_works_count":42,"referenced_works":["https://openalex.org/W1806022110","https://openalex.org/W1969904029","https://openalex.org/W2036897871","https://openalex.org/W2085926377","https://openalex.org/W2092696502","https://openalex.org/W2124985265","https://openalex.org/W2126419817","https://openalex.org/W2131026689","https://openalex.org/W2131186249","https://openalex.org/W2136911182","https://openalex.org/W2170551349","https://openalex.org/W2224150270","https://openalex.org/W2289294330","https://openalex.org/W2296335794","https://openalex.org/W2337747100","https://openalex.org/W2346339331","https://openalex.org/W2415159633","https://openalex.org/W2432815617","https://openalex.org/W2559272732","https://openalex.org/W2559581118","https://openalex.org/W2605897695","https://openalex.org/W2613409207","https://openalex.org/W2754579667","https://openalex.org/W2791926234","https://openalex.org/W2794660864","https://openalex.org/W2804419420","https://openalex.org/W2809322052","https://openalex.org/W2888413831","https://openalex.org/W2911336328","https://openalex.org/W2912009929","https://openalex.org/W2917207851","https://openalex.org/W2950464960","https://openalex.org/W2952539125","https://openalex.org/W2957073600","https://openalex.org/W2966145290","https://openalex.org/W2966260219","https://openalex.org/W2984894304","https://openalex.org/W2990618091","https://openalex.org/W3024225880","https://openalex.org/W3030942202","https://openalex.org/W3032129914","https://openalex.org/W3049091217"],"related_works":["https://openalex.org/W4210312276","https://openalex.org/W4394334725","https://openalex.org/W4394325869","https://openalex.org/W3043668926","https://openalex.org/W4394383033","https://openalex.org/W4394278351","https://openalex.org/W4394378620","https://openalex.org/W4394291587","https://openalex.org/W4321764688","https://openalex.org/W1989359751"],"abstract_inverted_index":{"BACKGROUND:":[0],"Next-Generation-Sequencing":[1],"(NGS)":[2],"enables":[3],"detection":[4],"of":[5,13,23,32,38,80,100,143],"microorganisms":[6],"present":[7],"in":[8],"biological":[9],"and":[10,16,26,47,69,109,151],"other":[11],"matrices":[12],"various":[14],"origin":[15],"nature,":[17],"allowing":[18],"not":[19],"only":[20],"the":[21,30,56,60,63,133],"identification":[22],"known":[24],"phyla":[25],"strains":[27],"but":[28],"also":[29,116],"discovery":[31],"novel":[33],"ones.":[34],"The":[35],"large":[36,101],"amount":[37],"metagenomic":[39],"shotgun":[40],"data":[41,51,88],"produced":[42],"by":[43,117,127,146],"NGS":[44,102],"require":[45],"comprehensive":[46,140],"user-friendly":[48],"pipelines":[49],"for":[50,86,96],"analysis,":[52,89],"that":[53,112,136],"speed":[54],"up":[55],"bioinformatics":[57],"steps,":[58],"relieving":[59],"users":[61,118],"from":[62],"need":[64],"to":[65,138,156],"manually":[66],"perform":[67],"complex":[68],"time-consuming":[70],"tasks.":[71],"RESULTS:":[72],"We":[73],"describe":[74],"here":[75],"HOME-BIO":[76,105],"(sHOtgun":[77],"MEtagenomic":[78],"analysis":[79,99],"BIOlogical":[81],"entities),":[82],"an":[83,97],"exhaustive":[84],"pipeline":[85],"metagenomics":[87],"comprising":[90],"three":[91],"independent":[92],"analytical":[93,134],"modules":[94],"designed":[95],"inclusive":[98],"datasets.":[103],"CONCLUSIONS:":[104],"is":[106,153],"a":[107,139],"powerful":[108],"easy-to-use":[110],"tool":[111],"can":[113],"be":[114],"run":[115],"with":[119],"limited":[120],"computational":[121],"expertise.":[122],"It":[123],"allows":[124],"in-depth":[125],"analyses":[126],"removing":[128],"low-complexity/":[129],"problematic":[130],"reads,":[131],"integrating":[132],"steps":[135],"lead":[137],"taxonomy":[141],"profile":[142],"each":[144],"sample":[145],"querying":[147],"different":[148],"source":[149],"databases,":[150],"it":[152],"customizable":[154],"according":[155],"specific":[157],"users'":[158],"needs.":[159]},"counts_by_year":[{"year":2026,"cited_by_count":2},{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":4},{"year":2021,"cited_by_count":2}],"updated_date":"2026-06-11T09:08:48.828518","created_date":"2025-10-10T00:00:00"}
