{"id":"https://openalex.org/W3111940288","doi":"https://doi.org/10.1093/bioinformatics/btaa1032","title":"PETAL: a Python tool for deep analysis of biological pathways","display_name":"PETAL: a Python tool for deep analysis of biological pathways","publication_year":2020,"publication_date":"2020-12-01","ids":{"openalex":"https://openalex.org/W3111940288","doi":"https://doi.org/10.1093/bioinformatics/btaa1032","mag":"3111940288","pmid":"https://pubmed.ncbi.nlm.nih.gov/33325491"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaa1032","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa1032","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/22-23/5553/36855788/btaa1032.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/36/22-23/5553/36855788/btaa1032.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5078384674","display_name":"Giuseppe Sgroi","orcid":"https://orcid.org/0000-0001-5062-4696"},"institutions":[{"id":"https://openalex.org/I39063666","display_name":"University of Catania","ror":"https://ror.org/03a64bh57","country_code":"IT","type":"education","lineage":["https://openalex.org/I39063666"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Giuseppe Sgroi","raw_affiliation_strings":["Department of Mathematics and Computer Science, University of Catania , 95125 Catania, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Mathematics and Computer Science, University of Catania , 95125 Catania, Italy","institution_ids":["https://openalex.org/I39063666"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004880055","display_name":"Giulia Russo","orcid":"https://orcid.org/0000-0001-6616-7856"},"institutions":[{"id":"https://openalex.org/I39063666","display_name":"University of Catania","ror":"https://ror.org/03a64bh57","country_code":"IT","type":"education","lineage":["https://openalex.org/I39063666"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Giulia Russo","raw_affiliation_strings":["Depatment of Drug Sciences, University of Catania , 95125 Catania, Italy"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Depatment of Drug Sciences, University of Catania , 95125 Catania, Italy","institution_ids":["https://openalex.org/I39063666"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5044340074","display_name":"Francesco Pappalardo","orcid":"https://orcid.org/0000-0003-1668-3320"},"institutions":[{"id":"https://openalex.org/I39063666","display_name":"University of Catania","ror":"https://ror.org/03a64bh57","country_code":"IT","type":"education","lineage":["https://openalex.org/I39063666"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Francesco Pappalardo","raw_affiliation_strings":["Depatment of Drug Sciences, University of Catania , 95125 Catania, Italy"],"raw_orcid":"https://orcid.org/0000-0003-1668-3320","affiliations":[{"raw_affiliation_string":"Depatment of Drug Sciences, University of Catania , 95125 Catania, Italy","institution_ids":["https://openalex.org/I39063666"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5004880055"],"corresponding_institution_ids":["https://openalex.org/I39063666"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.4068,"has_fulltext":false,"cited_by_count":6,"citation_normalized_percentile":{"value":0.60355934,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":96},"biblio":{"volume":"36","issue":"22-23","first_page":"5553","last_page":"5555"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.7031000256538391,"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":0.7031000256538391,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.07559999823570251,"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/T12859","display_name":"Cell Image Analysis Techniques","score":0.06279999762773514,"subfield":{"id":"https://openalex.org/subfields/1304","display_name":"Biophysics"},"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/python","display_name":"Python (programming language)","score":0.8752915859222412},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5820491313934326},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5232844948768616},{"id":"https://openalex.org/keywords/petal","display_name":"Petal","score":0.4993724822998047},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.3368404507637024},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.329353392124176},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.2928464412689209},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.23913931846618652},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.07526561617851257}],"concepts":[{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.8752915859222412},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5820491313934326},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5232844948768616},{"id":"https://openalex.org/C120545014","wikidata":"https://www.wikidata.org/wiki/Q107412","display_name":"Petal","level":2,"score":0.4993724822998047},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.3368404507637024},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.329353392124176},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.2928464412689209},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.23913931846618652},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.07526561617851257}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btaa1032","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa1032","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/22-23/5553/36855788/btaa1032.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:33325491","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33325491","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:zenodo.org:100583","is_oa":true,"landing_page_url":"https://www.openaccessrepository.it/record/100583","pdf_url":null,"source":{"id":"https://openalex.org/S4306402478","display_name":"INFM-OAR (INFN Catania)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210116497","host_organization_name":"Istituto Nazionale di Fisica Nucleare, Sezione di Catania","host_organization_lineage":["https://openalex.org/I4210116497"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btaa1032","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa1032","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/36/22-23/5553/36855788/btaa1032.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":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W3111940288.pdf"},"referenced_works_count":11,"referenced_works":["https://openalex.org/W1989277387","https://openalex.org/W2047603234","https://openalex.org/W2096173332","https://openalex.org/W2114108194","https://openalex.org/W2135415614","https://openalex.org/W2142237411","https://openalex.org/W2179127114","https://openalex.org/W2317505839","https://openalex.org/W2765481834","https://openalex.org/W2903072518","https://openalex.org/W4233698560"],"related_works":["https://openalex.org/W2381101607","https://openalex.org/W2026306910","https://openalex.org/W2183564221","https://openalex.org/W2789855011","https://openalex.org/W2045731359","https://openalex.org/W2061939770","https://openalex.org/W2128244266","https://openalex.org/W2320422610","https://openalex.org/W2323067017","https://openalex.org/W3036211860"],"abstract_inverted_index":{"SUMMARY:":[0],"Although":[1],"several":[2],"bioinformatics":[3],"tools":[4],"have":[5],"been":[6,15],"developed":[7,24],"to":[8,17,51],"examine":[9],"signaling":[10],"pathways,":[11],"little":[12],"attention":[13],"has":[14],"given":[16],"ever":[18],"long-distance":[19],"crosstalk":[20],"mechanisms.":[21],"Here,":[22],"we":[23],"PETAL,":[25],"a":[26,39,74],"Python":[27],"tool":[28],"that":[29,58,84],"automatically":[30],"explores":[31],"and":[32,43,62,90],"detects":[33],"the":[34,66],"most":[35],"relevant":[36],"nodes":[37],"within":[38],"KEGG":[40],"pathway,":[41],"scanning":[42],"performing":[44],"an":[45],"in-depth":[46],"search.":[47],"PETAL":[48,72],"can":[49],"contribute":[50],"discovering":[52],"novel":[53],"therapeutic":[54],"targets":[55],"or":[56],"biomarkers":[57],"are":[59,93],"potentially":[60],"hidden":[61],"not":[63],"considered":[64],"in":[65],"network":[67],"under":[68],"study.":[69],"AVAILABILITYAND":[70],"IMPLEMENTATION:":[71],"is":[73],"freely":[75],"available":[76],"open-source":[77],"software.":[78],"It":[79],"runs":[80],"on":[81],"all":[82],"platforms":[83],"support":[85],"Python3.":[86],"The":[87],"user":[88],"manual":[89],"source":[91],"code":[92],"accessible":[94],"from":[95],"https://github.com/Pex2892/PETAL.":[96]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":1}],"updated_date":"2026-05-22T06:13:13.366637","created_date":"2025-10-10T00:00:00"}
