{"id":"https://openalex.org/W2145957078","doi":"https://doi.org/10.1093/bioinformatics/btq258","title":"COMPASSS (COMplex PAttern of Sequence Search Software), a simple and effective tool for mining complex motifs in whole genomes","display_name":"COMPASSS (COMplex PAttern of Sequence Search Software), a simple and effective tool for mining complex motifs in whole genomes","publication_year":2010,"publication_date":"2010-05-25","ids":{"openalex":"https://openalex.org/W2145957078","doi":"https://doi.org/10.1093/bioinformatics/btq258","mag":"2145957078","pmid":"https://pubmed.ncbi.nlm.nih.gov/20501554"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btq258","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq258","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/A5069198387","display_name":"Giuseppe Maccari","orcid":"https://orcid.org/0000-0002-2894-3583"},"institutions":[{"id":"https://openalex.org/I108290504","display_name":"University of Pisa","ror":"https://ror.org/03ad39j10","country_code":"IT","type":"education","lineage":["https://openalex.org/I108290504"]},{"id":"https://openalex.org/I2801668426","display_name":"Ospedale di Circolo e Fondazione Macchi","ror":"https://ror.org/02s6h0431","country_code":"IT","type":"healthcare","lineage":["https://openalex.org/I2801668426"]},{"id":"https://openalex.org/I115752224","display_name":"University of Insubria","ror":"https://ror.org/00s409261","country_code":"IT","type":"education","lineage":["https://openalex.org/I115752224"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"Giuseppe Maccari","raw_affiliation_strings":["1 Laboratory of Microbiology and Genetics \u2013 Ospedale di Circolo e Fondazione Macchi, University of Insubria, Viale Borri 57 21100 Varese, Italy and 2 Department of Biology \u2013 Genetics, University of Pisa, via Derna 1, 56126 Pisa, Italy"],"affiliations":[{"raw_affiliation_string":"1 Laboratory of Microbiology and Genetics \u2013 Ospedale di Circolo e Fondazione Macchi, University of Insubria, Viale Borri 57 21100 Varese, Italy and 2 Department of Biology \u2013 Genetics, University of Pisa, via Derna 1, 56126 Pisa, Italy","institution_ids":["https://openalex.org/I2801668426","https://openalex.org/I115752224","https://openalex.org/I108290504"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5066942630","display_name":"Federica Gemignani","orcid":"https://orcid.org/0000-0003-1297-0701"},"institutions":[{"id":"https://openalex.org/I2801668426","display_name":"Ospedale di Circolo e Fondazione Macchi","ror":"https://ror.org/02s6h0431","country_code":"IT","type":"healthcare","lineage":["https://openalex.org/I2801668426"]},{"id":"https://openalex.org/I108290504","display_name":"University of Pisa","ror":"https://ror.org/03ad39j10","country_code":"IT","type":"education","lineage":["https://openalex.org/I108290504"]},{"id":"https://openalex.org/I115752224","display_name":"University of Insubria","ror":"https://ror.org/00s409261","country_code":"IT","type":"education","lineage":["https://openalex.org/I115752224"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Federica Gemignani","raw_affiliation_strings":["1 Laboratory of Microbiology and Genetics \u2013 Ospedale di Circolo e Fondazione Macchi, University of Insubria, Viale Borri 57 21100 Varese, Italy and 2 Department of Biology \u2013 Genetics, University of Pisa, via Derna 1, 56126 Pisa, Italy"],"affiliations":[{"raw_affiliation_string":"1 Laboratory of Microbiology and Genetics \u2013 Ospedale di Circolo e Fondazione Macchi, University of Insubria, Viale Borri 57 21100 Varese, Italy and 2 Department of Biology \u2013 Genetics, University of Pisa, via Derna 1, 56126 Pisa, Italy","institution_ids":["https://openalex.org/I2801668426","https://openalex.org/I115752224","https://openalex.org/I108290504"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5040591887","display_name":"Stefano Landi","orcid":"https://orcid.org/0000-0001-8364-6357"},"institutions":[{"id":"https://openalex.org/I115752224","display_name":"University of Insubria","ror":"https://ror.org/00s409261","country_code":"IT","type":"education","lineage":["https://openalex.org/I115752224"]},{"id":"https://openalex.org/I108290504","display_name":"University of Pisa","ror":"https://ror.org/03ad39j10","country_code":"IT","type":"education","lineage":["https://openalex.org/I108290504"]},{"id":"https://openalex.org/I2801668426","display_name":"Ospedale di Circolo e Fondazione Macchi","ror":"https://ror.org/02s6h0431","country_code":"IT","type":"healthcare","lineage":["https://openalex.org/I2801668426"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"Stefano Landi","raw_affiliation_strings":["1 Laboratory of Microbiology and Genetics \u2013 Ospedale di Circolo e Fondazione Macchi, University of Insubria, Viale Borri 57 21100 Varese, Italy and 2 Department of Biology \u2013 Genetics, University of Pisa, via Derna 1, 56126 Pisa, Italy"],"affiliations":[{"raw_affiliation_string":"1 Laboratory of Microbiology and Genetics \u2013 Ospedale di Circolo e Fondazione Macchi, University of Insubria, Viale Borri 57 21100 Varese, Italy and 2 Department of Biology \u2013 Genetics, University of Pisa, via Derna 1, 56126 Pisa, Italy","institution_ids":["https://openalex.org/I2801668426","https://openalex.org/I115752224","https://openalex.org/I108290504"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5069198387"],"corresponding_institution_ids":["https://openalex.org/I108290504","https://openalex.org/I115752224","https://openalex.org/I2801668426"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.1895,"has_fulltext":false,"cited_by_count":9,"citation_normalized_percentile":{"value":0.77981041,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":96,"max":97},"biblio":{"volume":"26","issue":"14","first_page":"1777","last_page":"1778"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9993000030517578,"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/T10222","display_name":"Genomics and Chromatin Dynamics","score":0.9993000030517578,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9991999864578247,"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/T10015","display_name":"Genomics and Phylogenetic Studies","score":0.9990000128746033,"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/genome","display_name":"Genome","score":0.7001336812973022},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5856802463531494},{"id":"https://openalex.org/keywords/robustness","display_name":"Robustness (evolution)","score":0.5668630599975586},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5355304479598999},{"id":"https://openalex.org/keywords/software-suite","display_name":"Software suite","score":0.534408450126648},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5137501955032349},{"id":"https://openalex.org/keywords/multicellular-organism","display_name":"Multicellular organism","score":0.49670177698135376},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.4872395098209381},{"id":"https://openalex.org/keywords/suite","display_name":"Suite","score":0.4155745506286621},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.34024345874786377},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.327784925699234},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.20523568987846375},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.08995234966278076}],"concepts":[{"id":"https://openalex.org/C141231307","wikidata":"https://www.wikidata.org/wiki/Q7020","display_name":"Genome","level":3,"score":0.7001336812973022},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5856802463531494},{"id":"https://openalex.org/C63479239","wikidata":"https://www.wikidata.org/wiki/Q7353546","display_name":"Robustness (evolution)","level":3,"score":0.5668630599975586},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5355304479598999},{"id":"https://openalex.org/C2778736646","wikidata":"https://www.wikidata.org/wiki/Q1143070","display_name":"Software suite","level":3,"score":0.534408450126648},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5137501955032349},{"id":"https://openalex.org/C74318829","wikidata":"https://www.wikidata.org/wiki/Q36458","display_name":"Multicellular organism","level":3,"score":0.49670177698135376},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.4872395098209381},{"id":"https://openalex.org/C79581498","wikidata":"https://www.wikidata.org/wiki/Q1367530","display_name":"Suite","level":2,"score":0.4155745506286621},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.34024345874786377},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.327784925699234},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.20523568987846375},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.08995234966278076},{"id":"https://openalex.org/C95457728","wikidata":"https://www.wikidata.org/wiki/Q309","display_name":"History","level":0,"score":0.0},{"id":"https://openalex.org/C166957645","wikidata":"https://www.wikidata.org/wiki/Q23498","display_name":"Archaeology","level":1,"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":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001483","descriptor_name":"Base Sequence","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","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":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D016678","descriptor_name":"Genome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D057225","descriptor_name":"Data Mining","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btq258","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btq258","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:20501554","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/20501554","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:arpi.unipi.it:11568/190562","is_oa":false,"landing_page_url":"http://hdl.handle.net/11568/190562","pdf_url":null,"source":{"id":"https://openalex.org/S4377196265","display_name":"CINECA IRIS Institutial research information system (University of Pisa)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I108290504","host_organization_name":"University of Pisa","host_organization_lineage":["https://openalex.org/I108290504"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":null,"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/17","score":0.4000000059604645,"display_name":"Partnerships for the goals"}],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":11,"referenced_works":["https://openalex.org/W124244495","https://openalex.org/W1971363517","https://openalex.org/W1991494214","https://openalex.org/W2006195332","https://openalex.org/W2046707099","https://openalex.org/W2074222004","https://openalex.org/W2102304447","https://openalex.org/W2127230663","https://openalex.org/W2164814636","https://openalex.org/W2612812586","https://openalex.org/W6605045863"],"related_works":["https://openalex.org/W1516095885","https://openalex.org/W4231704780","https://openalex.org/W2158573927","https://openalex.org/W2108921801","https://openalex.org/W1981336497","https://openalex.org/W4206079007","https://openalex.org/W2398058485","https://openalex.org/W254965819","https://openalex.org/W3156231268","https://openalex.org/W4205365843"],"abstract_inverted_index":{"The":[0],"COMPASSS":[1],"suite":[2],"is":[3],"available":[4],"for":[5],"Windows":[6],"free":[7],"of":[8],"charge":[9],"from":[10],"our":[11],"web":[12],"sites:":[13],"compasss.sourceforge.net/;":[14],"www.stefanolandi.eu/":[15]},"counts_by_year":[{"year":2013,"cited_by_count":3},{"year":2012,"cited_by_count":3}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}