{"id":"https://openalex.org/W4414033088","doi":"https://doi.org/10.1371/journal.pcbi.1013386","title":"Ten practical tips and tricks to improve the effectiveness of biological network alignment","display_name":"Ten practical tips and tricks to improve the effectiveness of biological network alignment","publication_year":2025,"publication_date":"2025-09-04","ids":{"openalex":"https://openalex.org/W4414033088","doi":"https://doi.org/10.1371/journal.pcbi.1013386","pmid":"https://pubmed.ncbi.nlm.nih.gov/40906784"},"language":"en","primary_location":{"id":"doi:10.1371/journal.pcbi.1013386","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1013386","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1013386&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1013386&type=printable","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078020905","display_name":"Giuseppe Agapito","orcid":"https://orcid.org/0000-0003-2868-7732"},"institutions":[{"id":"https://openalex.org/I36443711","display_name":"Magna Graecia University","ror":"https://ror.org/0530bdk91","country_code":"IT","type":"education","lineage":["https://openalex.org/I36443711"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Giuseppe Agapito","raw_affiliation_strings":["Cultura Romana del Diritto e Sistemi Giuridici Contemporanei Research Center, Magna Graecia University of Catanzaro, Catanzaro, Italy","Data Analytics Research Center, Magna Graecia University of Catanzaro, Catanzaro, Italy","Department of Law, Economics and Social Sciences, Magna Graecia University of Catanzaro, Catanzaro, Italy","Laboratorio di Storia Giuridica ed Economica Research Center, Magna Graecia University of Catanzaro, Catanzaro, Italy"],"affiliations":[{"raw_affiliation_string":"Cultura Romana del Diritto e Sistemi Giuridici Contemporanei Research Center, Magna Graecia University of Catanzaro, Catanzaro, Italy","institution_ids":["https://openalex.org/I36443711"]},{"raw_affiliation_string":"Data Analytics Research Center, Magna Graecia University of Catanzaro, Catanzaro, Italy","institution_ids":["https://openalex.org/I36443711"]},{"raw_affiliation_string":"Department of Law, Economics and Social Sciences, Magna Graecia University of Catanzaro, Catanzaro, Italy","institution_ids":["https://openalex.org/I36443711"]},{"raw_affiliation_string":"Laboratorio di Storia Giuridica ed Economica Research Center, Magna Graecia University of Catanzaro, Catanzaro, Italy","institution_ids":["https://openalex.org/I36443711"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004845138","display_name":"Mario Cannataro","orcid":"https://orcid.org/0000-0003-1502-2387"},"institutions":[{"id":"https://openalex.org/I36443711","display_name":"Magna Graecia University","ror":"https://ror.org/0530bdk91","country_code":"IT","type":"education","lineage":["https://openalex.org/I36443711"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Mario Cannataro","raw_affiliation_strings":["Data Analytics Research Center, Magna Graecia University of Catanzaro, Catanzaro, Italy","Department of Medical and Surgical Sciences, Magna Graecia University of Catanzaro, Catanzaro, Italy"],"affiliations":[{"raw_affiliation_string":"Data Analytics Research Center, Magna Graecia University of Catanzaro, Catanzaro, Italy","institution_ids":["https://openalex.org/I36443711"]},{"raw_affiliation_string":"Department of Medical and Surgical Sciences, Magna Graecia University of Catanzaro, Catanzaro, Italy","institution_ids":["https://openalex.org/I36443711"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5024240784","display_name":"Pietro Cinaglia","orcid":"https://orcid.org/0000-0003-2237-6984"},"institutions":[{"id":"https://openalex.org/I36443711","display_name":"Magna Graecia University","ror":"https://ror.org/0530bdk91","country_code":"IT","type":"education","lineage":["https://openalex.org/I36443711"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Pietro Cinaglia","raw_affiliation_strings":["Data Analytics Research Center, Magna Graecia University of Catanzaro, Catanzaro, Italy","Department of Health Sciences, Magna Graecia University of Catanzaro, Catanzaro, Italy"],"affiliations":[{"raw_affiliation_string":"Data Analytics Research Center, Magna Graecia University of Catanzaro, Catanzaro, Italy","institution_ids":["https://openalex.org/I36443711"]},{"raw_affiliation_string":"Department of Health Sciences, Magna Graecia University of Catanzaro, Catanzaro, Italy","institution_ids":["https://openalex.org/I36443711"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5014008135","display_name":"Marianna Milano","orcid":"https://orcid.org/0000-0003-1561-725X"},"institutions":[{"id":"https://openalex.org/I36443711","display_name":"Magna Graecia University","ror":"https://ror.org/0530bdk91","country_code":"IT","type":"education","lineage":["https://openalex.org/I36443711"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Marianna Milano","raw_affiliation_strings":["Data Analytics Research Center, Magna Graecia University of Catanzaro, Catanzaro, Italy","Department of Experimental and Clinical Medicine, Magna Graecia University of Catanzaro, Catanzaro, Italy"],"affiliations":[{"raw_affiliation_string":"Data Analytics Research Center, Magna Graecia University of Catanzaro, Catanzaro, Italy","institution_ids":["https://openalex.org/I36443711"]},{"raw_affiliation_string":"Department of Experimental and Clinical Medicine, Magna Graecia University of Catanzaro, Catanzaro, Italy","institution_ids":["https://openalex.org/I36443711"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5004845138","https://openalex.org/A5014008135","https://openalex.org/A5024240784","https://openalex.org/A5078020905"],"corresponding_institution_ids":["https://openalex.org/I36443711"],"apc_list":{"value":2655,"currency":"USD","value_usd":2655},"apc_paid":{"value":2655,"currency":"USD","value_usd":2655},"fwci":0.0,"has_fulltext":true,"cited_by_count":0,"citation_normalized_percentile":{"value":0.21990541,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":null,"biblio":{"volume":"21","issue":"9","first_page":"e1013386","last_page":"e1013386"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","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/T10887","display_name":"Bioinformatics and Genomic Networks","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/T10621","display_name":"Gene Regulatory Network Analysis","score":0.979200005531311,"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/T10885","display_name":"Gene expression and cancer classification","score":0.9613999724388123,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7437576651573181},{"id":"https://openalex.org/keywords/biological-network","display_name":"Biological network","score":0.7333307862281799},{"id":"https://openalex.org/keywords/preprocessor","display_name":"Preprocessor","score":0.6318392157554626},{"id":"https://openalex.org/keywords/clarity","display_name":"CLARITY","score":0.5753869414329529},{"id":"https://openalex.org/keywords/similarity","display_name":"Similarity (geometry)","score":0.5305681228637695},{"id":"https://openalex.org/keywords/data-science","display_name":"Data science","score":0.5084149241447449},{"id":"https://openalex.org/keywords/key","display_name":"Key (lock)","score":0.46352511644363403},{"id":"https://openalex.org/keywords/biological-data","display_name":"Biological data","score":0.45509976148605347},{"id":"https://openalex.org/keywords/network-analysis","display_name":"Network analysis","score":0.43024134635925293},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4116145372390747},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3529491424560547},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.35167041420936584},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.2183988392353058},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1468571126461029},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.09450685977935791}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7437576651573181},{"id":"https://openalex.org/C28225019","wikidata":"https://www.wikidata.org/wiki/Q4915005","display_name":"Biological network","level":2,"score":0.7333307862281799},{"id":"https://openalex.org/C34736171","wikidata":"https://www.wikidata.org/wiki/Q918333","display_name":"Preprocessor","level":2,"score":0.6318392157554626},{"id":"https://openalex.org/C2777146004","wikidata":"https://www.wikidata.org/wiki/Q14949826","display_name":"CLARITY","level":2,"score":0.5753869414329529},{"id":"https://openalex.org/C103278499","wikidata":"https://www.wikidata.org/wiki/Q254465","display_name":"Similarity (geometry)","level":3,"score":0.5305681228637695},{"id":"https://openalex.org/C2522767166","wikidata":"https://www.wikidata.org/wiki/Q2374463","display_name":"Data science","level":1,"score":0.5084149241447449},{"id":"https://openalex.org/C26517878","wikidata":"https://www.wikidata.org/wiki/Q228039","display_name":"Key (lock)","level":2,"score":0.46352511644363403},{"id":"https://openalex.org/C201797286","wikidata":"https://www.wikidata.org/wiki/Q4914986","display_name":"Biological data","level":2,"score":0.45509976148605347},{"id":"https://openalex.org/C32946077","wikidata":"https://www.wikidata.org/wiki/Q618079","display_name":"Network analysis","level":2,"score":0.43024134635925293},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4116145372390747},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3529491424560547},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.35167041420936584},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.2183988392353058},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1468571126461029},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.09450685977935791},{"id":"https://openalex.org/C119599485","wikidata":"https://www.wikidata.org/wiki/Q43035","display_name":"Electrical engineering","level":1,"score":0.0},{"id":"https://openalex.org/C38652104","wikidata":"https://www.wikidata.org/wiki/Q3510521","display_name":"Computer security","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0},{"id":"https://openalex.org/C115961682","wikidata":"https://www.wikidata.org/wiki/Q860623","display_name":"Image (mathematics)","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D016415","descriptor_name":"Sequence Alignment","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":true}],"locations_count":4,"locations":[{"id":"doi:10.1371/journal.pcbi.1013386","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1013386","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1013386&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},{"id":"pmid:40906784","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/40906784","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":"PLoS computational biology","raw_type":null},{"id":"pmh:oai:doaj.org/article:913358e504e54093a346894a84e2f90a","is_oa":true,"landing_page_url":"https://doaj.org/article/913358e504e54093a346894a84e2f90a","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Computational Biology, Vol 21, Iss 9, p e1013386 (2025)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:12410751","is_oa":true,"landing_page_url":"https://pmc.ncbi.nlm.nih.gov/articles/PMC12410751/","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","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":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"PLoS Comput Biol","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1371/journal.pcbi.1013386","is_oa":true,"landing_page_url":"https://doi.org/10.1371/journal.pcbi.1013386","pdf_url":"https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1013386&type=printable","source":{"id":"https://openalex.org/S86033158","display_name":"PLoS Computational Biology","issn_l":"1553-734X","issn":["1553-734X","1553-7358"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310315706","host_organization_name":"Public Library of Science","host_organization_lineage":["https://openalex.org/P4310315706"],"host_organization_lineage_names":["Public Library of Science"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"PLOS Computational Biology","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W4414033088.pdf","grobid_xml":"https://content.openalex.org/works/W4414033088.grobid-xml"},"referenced_works_count":30,"referenced_works":["https://openalex.org/W79083842","https://openalex.org/W100901184","https://openalex.org/W1659833910","https://openalex.org/W2024166504","https://openalex.org/W2030530458","https://openalex.org/W2055043387","https://openalex.org/W2056124433","https://openalex.org/W2062584010","https://openalex.org/W2088866486","https://openalex.org/W2119021615","https://openalex.org/W2127563440","https://openalex.org/W2128408632","https://openalex.org/W2130237248","https://openalex.org/W2130410032","https://openalex.org/W2140084895","https://openalex.org/W2149037310","https://openalex.org/W2153929049","https://openalex.org/W2155834877","https://openalex.org/W2159675211","https://openalex.org/W2165371346","https://openalex.org/W2167566248","https://openalex.org/W2171108134","https://openalex.org/W2329886130","https://openalex.org/W2569705007","https://openalex.org/W2587997094","https://openalex.org/W2899600207","https://openalex.org/W3026082741","https://openalex.org/W4366226301","https://openalex.org/W4388409528","https://openalex.org/W4388933875"],"related_works":["https://openalex.org/W2155492529","https://openalex.org/W4252504573","https://openalex.org/W4385510321","https://openalex.org/W15348386","https://openalex.org/W2314128295","https://openalex.org/W1509942269","https://openalex.org/W4287026692","https://openalex.org/W2077895977","https://openalex.org/W2609388058","https://openalex.org/W2995291573"],"abstract_inverted_index":{"Network":[0,107],"alignment":[1,138],"(NA)":[2],"is":[3],"a":[4,40],"computational":[5],"methodology":[6],"employed":[7],"to":[8,151],"compare":[9],"biological":[10,30,157],"networks":[11],"across":[12],"different":[13],"species":[14],"or":[15],"conditions.":[16],"By":[17,135],"identifying":[18],"conserved":[19],"structures,":[20],"functions,":[21],"and":[22,34,57,66,81,93,105,115,122,131,140],"interactions,":[23],"NA":[24,44,101,124,150],"provides":[25],"invaluable":[26],"insights":[27],"into":[28],"shared":[29],"processes,":[31],"evolutionary":[32],"relationships,":[33],"system-level":[35],"behaviors.":[36],"This":[37],"manuscript":[38],"presents":[39],"comprehensive":[41],"overview":[42],"of":[43,49,87,149,155],"methodologies,":[45],"including":[46,103],"the":[47,85,147],"importance":[48],"preprocessing":[50],"network":[51,60,94],"data,":[52],"selecting":[53],"suitable":[54],"input":[55],"formats,":[56],"understanding":[58,154],"diverse":[59,137],"types":[61],"such":[62,74],"as":[63,75],"attributed,":[64],"temporal,":[65],"multilayer":[67],"networks.":[68],"Additionally,":[69],"it":[70],"explores":[71],"key":[72],"challenges":[73],"seed":[76],"nodes":[77],"selection,":[78],"algorithm":[79],"configuration,":[80],"cross-species":[82],"alignment,":[83],"emphasizing":[84],"necessity":[86],"integrating":[88],"functional":[89],"annotations,":[90],"sequence":[91],"similarity,":[92],"topology":[95],"for":[96,119],"biologically":[97],"meaningful":[98],"results.":[99],"Various":[100],"strategies,":[102],"Local":[104],"Global":[106],"Alignment,":[108],"are":[109,126],"discussed":[110],"alongside":[111],"their":[112],"respective":[113],"advantages":[114],"limitations.":[116],"Practical":[117],"recommendations":[118],"effectively":[120],"documenting":[121],"visualizing":[123],"experiments":[125],"also":[127],"provided,":[128],"ensuring":[129],"reproducibility":[130],"clarity":[132],"in":[133],"research.":[134],"leveraging":[136],"tools":[139],"adopting":[141],"best":[142],"practices,":[143],"researchers":[144],"can":[145],"unlock":[146],"potential":[148],"advance":[152],"our":[153],"complex":[156],"systems.":[158]},"counts_by_year":[],"updated_date":"2026-03-10T16:38:18.471706","created_date":"2025-10-10T00:00:00"}