{"id":"https://openalex.org/W2952963653","doi":"https://doi.org/10.1093/bioinformatics/btz487","title":"iTUPA: an online automated application to perform Topographic-Unit Parsimony Analysis","display_name":"iTUPA: an online automated application to perform Topographic-Unit Parsimony Analysis","publication_year":2019,"publication_date":"2019-06-06","ids":{"openalex":"https://openalex.org/W2952963653","doi":"https://doi.org/10.1093/bioinformatics/btz487","mag":"2952963653","pmid":"https://pubmed.ncbi.nlm.nih.gov/31197309"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz487","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz487","pdf_url":null,"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":false,"oa_status":"closed","oa_url":null,"any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5016138306","display_name":"Muhsen Hammoud","orcid":"https://orcid.org/0000-0002-9460-3085"},"institutions":[],"countries":[],"is_corresponding":true,"raw_author_name":"Muhsen Hammoud","raw_affiliation_strings":["Center for Mathematics, Computing, and Cognition, Santo Andr\u00e9, S\u00e3o Paulo , Brazil"],"raw_orcid":"https://orcid.org/0000-0002-9460-3085","affiliations":[{"raw_affiliation_string":"Center for Mathematics, Computing, and Cognition, Santo Andr\u00e9, S\u00e3o Paulo , Brazil","institution_ids":[]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061285429","display_name":"Charles Morphy D. Santos","orcid":"https://orcid.org/0000-0001-5577-0799"},"institutions":[{"id":"https://openalex.org/I71715416","display_name":"Universidade Federal do ABC","ror":"https://ror.org/028kg9j04","country_code":"BR","type":"education","lineage":["https://openalex.org/I71715416"]}],"countries":["BR"],"is_corresponding":false,"raw_author_name":"Charles Morphy D Santos","raw_affiliation_strings":["Center for Natural and Human Sciences, Federal University of ABC, Santo Andr\u00e9 , S\u00e3o Paulo, Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Natural and Human Sciences, Federal University of ABC, Santo Andr\u00e9 , S\u00e3o Paulo, Brazil","institution_ids":["https://openalex.org/I71715416"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5059881766","display_name":"Jo\u00e3o Paulo Gois","orcid":"https://orcid.org/0000-0002-9437-6943"},"institutions":[],"countries":[],"is_corresponding":false,"raw_author_name":"Jo\u00e3o Paulo Gois","raw_affiliation_strings":["Center for Mathematics, Computing, and Cognition, Santo Andr\u00e9, S\u00e3o Paulo , Brazil"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Mathematics, Computing, and Cognition, Santo Andr\u00e9, S\u00e3o Paulo , Brazil","institution_ids":[]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":1,"corresponding_author_ids":["https://openalex.org/A5016138306"],"corresponding_institution_ids":[],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.1736,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.66628882,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":94},"biblio":{"volume":"35","issue":"22","first_page":"4818","last_page":"4820"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10895","display_name":"Species Distribution and Climate Change","score":0.4860999882221222,"subfield":{"id":"https://openalex.org/subfields/2302","display_name":"Ecological Modeling"},"field":{"id":"https://openalex.org/fields/23","display_name":"Environmental Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10895","display_name":"Species Distribution and Climate Change","score":0.4860999882221222,"subfield":{"id":"https://openalex.org/subfields/2302","display_name":"Ecological Modeling"},"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/T12637","display_name":"Scarabaeidae Beetle Taxonomy and Biogeography","score":0.20200000703334808,"subfield":{"id":"https://openalex.org/subfields/1911","display_name":"Paleontology"},"field":{"id":"https://openalex.org/fields/19","display_name":"Earth and Planetary Sciences"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10005","display_name":"Ecology and Vegetation Dynamics Studies","score":0.11840000003576279,"subfield":{"id":"https://openalex.org/subfields/2309","display_name":"Nature and Landscape Conservation"},"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/endemism","display_name":"Endemism","score":0.6567549705505371},{"id":"https://openalex.org/keywords/unit","display_name":"Unit (ring theory)","score":0.5779806971549988},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5433200001716614},{"id":"https://openalex.org/keywords/geography","display_name":"Geography","score":0.3853392004966736},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.32720649242401123},{"id":"https://openalex.org/keywords/ecology","display_name":"Ecology","score":0.2392965853214264},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.20156264305114746},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.13269564509391785}],"concepts":[{"id":"https://openalex.org/C137664086","wikidata":"https://www.wikidata.org/wiki/Q123452","display_name":"Endemism","level":2,"score":0.6567549705505371},{"id":"https://openalex.org/C122637931","wikidata":"https://www.wikidata.org/wiki/Q118084","display_name":"Unit (ring theory)","level":2,"score":0.5779806971549988},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5433200001716614},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.3853392004966736},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.32720649242401123},{"id":"https://openalex.org/C18903297","wikidata":"https://www.wikidata.org/wiki/Q7150","display_name":"Ecology","level":1,"score":0.2392965853214264},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.20156264305114746},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.13269564509391785},{"id":"https://openalex.org/C145420912","wikidata":"https://www.wikidata.org/wiki/Q853077","display_name":"Mathematics education","level":1,"score":0.0}],"mesh":[{"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":"D044822","descriptor_name":"Biodiversity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D044822","descriptor_name":"Biodiversity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D044822","descriptor_name":"Biodiversity","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btz487","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz487","pdf_url":null,"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:31197309","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31197309","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}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/15","score":0.7400000095367432,"display_name":"Life in Land"}],"awards":[{"id":"https://openalex.org/G835229253","display_name":null,"funder_award_id":"2017/11768-8","funder_id":"https://openalex.org/F4320320997","funder_display_name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo"}],"funders":[{"id":"https://openalex.org/F4320320997","display_name":"Funda\u00e7\u00e3o de Amparo \u00e0 Pesquisa do Estado de S\u00e3o Paulo","ror":"https://ror.org/02ddkpn78"},{"id":"https://openalex.org/F4320321091","display_name":"Coordena\u00e7\u00e3o de Aperfei\u00e7oamento de Pessoal de N\u00edvel Superior","ror":"https://ror.org/00x0ma614"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":10,"referenced_works":["https://openalex.org/W597735610","https://openalex.org/W1985220754","https://openalex.org/W2019057533","https://openalex.org/W2070607251","https://openalex.org/W2079091049","https://openalex.org/W2342577284","https://openalex.org/W2787765970","https://openalex.org/W3183276770","https://openalex.org/W4205819726","https://openalex.org/W4255292996"],"related_works":["https://openalex.org/W2748952813","https://openalex.org/W2938691756","https://openalex.org/W3186621678","https://openalex.org/W3005109954","https://openalex.org/W2098273472","https://openalex.org/W3094844011","https://openalex.org/W2982628548","https://openalex.org/W3178169663","https://openalex.org/W3141368118","https://openalex.org/W3215385649"],"abstract_inverted_index":{"SUMMARY:":[0],"iTUPA":[1,22,43,54,76,90,101],"is":[2,77,91,102],"a":[3,34,45,78],"free":[4],"online":[5],"application":[6],"for":[7,49,81],"automatizing":[8],"the":[9,38,50,71,113],"Topographic-Unit":[10],"Parsimony":[11],"Analysis":[12],"(TUPA),":[13],"which":[14],"identifies":[15],"areas":[16],"of":[17,37,47,58],"endemism":[18,72],"based":[19,26],"on":[20,27,84,93],"topography.":[21],"generates":[23],"species-occurrences":[24],"matrices":[25],"user-defined":[28],"topographic":[29],"units":[30],"(TUs)":[31],"and":[32,62,96,120],"provides":[33],"parsimony":[35],"analysis":[36],"generated":[39],"matrix.":[40],"We":[41,74],"tested":[42],"after":[44],"proposal":[46],"regionalization":[48],"Brazilian":[51],"Atlantic":[52],"Forest.":[53],"can":[55],"handle":[56],"millions":[57],"species":[59],"registers":[60],"simultaneously":[61],"uses":[63],"Google":[64,94,121],"Earth":[65],"high-definition":[66],"maps":[67],"to":[68],"visually":[69],"explore":[70],"data.":[73],"believe":[75],"useful":[79],"tool":[80],"further":[82],"discussions":[83],"biodiversity":[85],"conservation.":[86],"AVAILABILITY":[87],"AND":[88],"IMPLEMENTATION:":[89],"hosted":[92],"cloud":[95],"freely":[97],"available":[98],"at":[99],"http://nuvem.ufabc.edu.br/itupa.":[100],"implemented":[103],"using":[104],"R":[105],"(version":[106],"3.5.1),":[107],"with":[108],"RStudio":[109],"1.1.453":[110],"used":[111],"as":[112],"implementation":[114],"IDE,":[115],"Shiny":[116],"1.1.0":[117],"web":[118],"framework,":[119],"Maps\u00ae":[122],"API":[123],"version":[124],"3.36.":[125]},"counts_by_year":[{"year":2022,"cited_by_count":1}],"updated_date":"2026-06-18T08:10:14.011955","created_date":"2025-10-10T00:00:00"}
