{"id":"https://openalex.org/W1557511881","doi":"https://doi.org/10.12688/f1000research.6773.1","title":"SLiMScape 3.x: a Cytoscape 3 app for discovery of Short Linear Motifs in protein interaction networks","display_name":"SLiMScape 3.x: a Cytoscape 3 app for discovery of Short Linear Motifs in protein interaction networks","publication_year":2015,"publication_date":"2015-08-05","ids":{"openalex":"https://openalex.org/W1557511881","doi":"https://doi.org/10.12688/f1000research.6773.1","mag":"1557511881","pmid":"https://pubmed.ncbi.nlm.nih.gov/26674271"},"language":"en","primary_location":{"id":"doi:10.12688/f1000research.6773.1","is_oa":true,"landing_page_url":"https://doi.org/10.12688/f1000research.6773.1","pdf_url":"https://f1000research.com/articles/4-477/v1/pdf","source":{"id":"https://openalex.org/S4210239046","display_name":"F1000Research","issn_l":"2046-1402","issn":["2046-1402"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320357","host_organization_name":"Faculty of 1000","host_organization_lineage":["https://openalex.org/P4310320357"],"host_organization_lineage_names":["Faculty of 1000"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"F1000Research","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://f1000research.com/articles/4-477/v1/pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5057663505","display_name":"Emily Olorin","orcid":"https://orcid.org/0000-0003-0913-7487"},"institutions":[{"id":"https://openalex.org/I31746571","display_name":"UNSW Sydney","ror":"https://ror.org/03r8z3t63","country_code":"AU","type":"education","lineage":["https://openalex.org/I31746571"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"Emily Olorin","raw_affiliation_strings":["School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, Australia","School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, Australia","institution_ids":["https://openalex.org/I31746571"]},{"raw_affiliation_string":"School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney","institution_ids":["https://openalex.org/I31746571"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5103885857","display_name":"Kevin T. O\u2019Brien","orcid":null},"institutions":[{"id":"https://openalex.org/I100930933","display_name":"University College Dublin","ror":"https://ror.org/05m7pjf47","country_code":"IE","type":"education","lineage":["https://openalex.org/I100930933"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"Kevin T. O'Brien","raw_affiliation_strings":["UCD Conway Institute of Biomolecular and Biomedical Research, School of Medicine, University College Dublin, Dublin, Ireland","UCD Conway Institute of Biomolecular and Biomedical Research, School of Medicine, University College Dublin, Dublin"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"UCD Conway Institute of Biomolecular and Biomedical Research, School of Medicine, University College Dublin, Dublin, Ireland","institution_ids":["https://openalex.org/I100930933"]},{"raw_affiliation_string":"UCD Conway Institute of Biomolecular and Biomedical Research, School of Medicine, University College Dublin, Dublin","institution_ids":["https://openalex.org/I100930933"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5083072847","display_name":"Nicol\u00e1s Pal\u00f3poli","orcid":"https://orcid.org/0000-0001-7925-6436"},"institutions":[{"id":"https://openalex.org/I138504249","display_name":"National University of Quilmes","ror":"https://ror.org/01r53hz59","country_code":"AR","type":"education","lineage":["https://openalex.org/I138504249"]},{"id":"https://openalex.org/I2801749607","display_name":"Fundaci\u00f3n Instituto Leloir","ror":"https://ror.org/0431v7h69","country_code":"AR","type":"facility","lineage":["https://openalex.org/I2801749607"]},{"id":"https://openalex.org/I43439940","display_name":"University of Southampton","ror":"https://ror.org/01ryk1543","country_code":"GB","type":"education","lineage":["https://openalex.org/I43439940"]}],"countries":["AR","GB"],"is_corresponding":false,"raw_author_name":"Nicolas Palopoli","raw_affiliation_strings":["Centre for Biological Sciences, University of Southampton, Southampton, UK ; Departamento de Ciencia y Tecnolog\u00eda, Universidad Nacional de Quilmes, Bernal, Argentina ; Fundaci\u00f3n Instituto Leloir, Buenos Aires, Argentina","Fundaci\u00f3n Instituto Leloir, Buenos Aires","Centre for Biological Sciences, University of Southampton, Southampton","Departamento de Ciencia y Tecnolog\u00eda, Universidad Nacional de Quilmes, Bernal"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Centre for Biological Sciences, University of Southampton, Southampton, UK ; Departamento de Ciencia y Tecnolog\u00eda, Universidad Nacional de Quilmes, Bernal, Argentina ; Fundaci\u00f3n Instituto Leloir, Buenos Aires, Argentina","institution_ids":["https://openalex.org/I138504249"]},{"raw_affiliation_string":"Fundaci\u00f3n Instituto Leloir, Buenos Aires","institution_ids":["https://openalex.org/I2801749607"]},{"raw_affiliation_string":"Centre for Biological Sciences, University of Southampton, Southampton","institution_ids":["https://openalex.org/I43439940"]},{"raw_affiliation_string":"Departamento de Ciencia y Tecnolog\u00eda, Universidad Nacional de Quilmes, Bernal","institution_ids":["https://openalex.org/I138504249"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5088567804","display_name":"\u00c5sa P\u00e9rez-Bercoff","orcid":null},"institutions":[{"id":"https://openalex.org/I31746571","display_name":"UNSW Sydney","ror":"https://ror.org/03r8z3t63","country_code":"AU","type":"education","lineage":["https://openalex.org/I31746571"]}],"countries":["AU"],"is_corresponding":false,"raw_author_name":"\u00c5sa P\u00e9rez-Bercoff","raw_affiliation_strings":["School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, Australia","School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, Australia","institution_ids":["https://openalex.org/I31746571"]},{"raw_affiliation_string":"School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney","institution_ids":["https://openalex.org/I31746571"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004065601","display_name":"Denis C. Shields","orcid":"https://orcid.org/0000-0003-4015-2474"},"institutions":[{"id":"https://openalex.org/I100930933","display_name":"University College Dublin","ror":"https://ror.org/05m7pjf47","country_code":"IE","type":"education","lineage":["https://openalex.org/I100930933"]}],"countries":["IE"],"is_corresponding":false,"raw_author_name":"Denis C. Shields","raw_affiliation_strings":["UCD Conway Institute of Biomolecular and Biomedical Research, School of Medicine, University College Dublin, Dublin, Ireland","UCD Conway Institute of Biomolecular and Biomedical Research, School of Medicine, University College Dublin, Dublin"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"UCD Conway Institute of Biomolecular and Biomedical Research, School of Medicine, University College Dublin, Dublin, Ireland","institution_ids":["https://openalex.org/I100930933"]},{"raw_affiliation_string":"UCD Conway Institute of Biomolecular and Biomedical Research, School of Medicine, University College Dublin, Dublin","institution_ids":["https://openalex.org/I100930933"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5054268632","display_name":"Richard J. Edwards","orcid":"https://orcid.org/0000-0002-3645-5539"},"institutions":[{"id":"https://openalex.org/I31746571","display_name":"UNSW Sydney","ror":"https://ror.org/03r8z3t63","country_code":"AU","type":"education","lineage":["https://openalex.org/I31746571"]},{"id":"https://openalex.org/I43439940","display_name":"University of Southampton","ror":"https://ror.org/01ryk1543","country_code":"GB","type":"education","lineage":["https://openalex.org/I43439940"]}],"countries":["AU","GB"],"is_corresponding":false,"raw_author_name":"Richard J. Edwards","raw_affiliation_strings":["School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, Australia ; Centre for Biological Sciences, University of Southampton, Southampton, UK","Centre for Biological Sciences, University of Southampton, Southampton","School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, Australia ; Centre for Biological Sciences, University of Southampton, Southampton, UK","institution_ids":["https://openalex.org/I43439940"]},{"raw_affiliation_string":"Centre for Biological Sciences, University of Southampton, Southampton","institution_ids":["https://openalex.org/I43439940"]},{"raw_affiliation_string":"School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney","institution_ids":["https://openalex.org/I31746571"]}]}],"institutions":[],"countries_distinct_count":4,"institutions_distinct_count":5,"corresponding_author_ids":[],"corresponding_institution_ids":[],"apc_list":{"value":1350,"currency":"USD","value_usd":1350},"apc_paid":{"value":1350,"currency":"USD","value_usd":1350},"fwci":0.1377,"has_fulltext":true,"cited_by_count":1,"citation_normalized_percentile":{"value":0.52271771,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"4","issue":null,"first_page":"477","last_page":"477"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9997000098228455,"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":0.9997000098228455,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9947999715805054,"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":0.9937000274658203,"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/uniprot","display_name":"UniProt","score":0.7781251668930054},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6904909610748291},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.5619739294052124},{"id":"https://openalex.org/keywords/identifier","display_name":"Identifier","score":0.5527757406234741},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.5147302150726318},{"id":"https://openalex.org/keywords/context","display_name":"Context (archaeology)","score":0.4653506875038147},{"id":"https://openalex.org/keywords/motif","display_name":"Motif (music)","score":0.44651615619659424},{"id":"https://openalex.org/keywords/protein-sequencing","display_name":"Protein sequencing","score":0.4264167547225952},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.4106454849243164},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.3317475914955139},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.3149290680885315},{"id":"https://openalex.org/keywords/peptide-sequence","display_name":"Peptide sequence","score":0.17549443244934082},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.13952764868736267},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.09573936462402344},{"id":"https://openalex.org/keywords/gene","display_name":"Gene","score":0.0946856141090393}],"concepts":[{"id":"https://openalex.org/C202264299","wikidata":"https://www.wikidata.org/wiki/Q905695","display_name":"UniProt","level":3,"score":0.7781251668930054},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6904909610748291},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.5619739294052124},{"id":"https://openalex.org/C154504017","wikidata":"https://www.wikidata.org/wiki/Q853614","display_name":"Identifier","level":2,"score":0.5527757406234741},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.5147302150726318},{"id":"https://openalex.org/C2779343474","wikidata":"https://www.wikidata.org/wiki/Q3109175","display_name":"Context (archaeology)","level":2,"score":0.4653506875038147},{"id":"https://openalex.org/C32276052","wikidata":"https://www.wikidata.org/wiki/Q908349","display_name":"Motif (music)","level":2,"score":0.44651615619659424},{"id":"https://openalex.org/C10010492","wikidata":"https://www.wikidata.org/wiki/Q3142557","display_name":"Protein sequencing","level":4,"score":0.4264167547225952},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.4106454849243164},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.3317475914955139},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.3149290680885315},{"id":"https://openalex.org/C167625842","wikidata":"https://www.wikidata.org/wiki/Q899763","display_name":"Peptide sequence","level":3,"score":0.17549443244934082},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.13952764868736267},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.09573936462402344},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"score":0.0946856141090393},{"id":"https://openalex.org/C151730666","wikidata":"https://www.wikidata.org/wiki/Q7205","display_name":"Paleontology","level":1,"score":0.0},{"id":"https://openalex.org/C24890656","wikidata":"https://www.wikidata.org/wiki/Q82811","display_name":"Acoustics","level":1,"score":0.0},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0}],"mesh":[],"locations_count":5,"locations":[{"id":"doi:10.12688/f1000research.6773.1","is_oa":true,"landing_page_url":"https://doi.org/10.12688/f1000research.6773.1","pdf_url":"https://f1000research.com/articles/4-477/v1/pdf","source":{"id":"https://openalex.org/S4210239046","display_name":"F1000Research","issn_l":"2046-1402","issn":["2046-1402"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320357","host_organization_name":"Faculty of 1000","host_organization_lineage":["https://openalex.org/P4310320357"],"host_organization_lineage_names":["Faculty of 1000"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"F1000Research","raw_type":"journal-article"},{"id":"pmid:26674271","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/26674271","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":"F1000Research","raw_type":null},{"id":"pmh:oai:doaj.org/article:25956ffaad1f4c9488db1a78c61788b9","is_oa":true,"landing_page_url":"https://doaj.org/article/25956ffaad1f4c9488db1a78c61788b9","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":"F1000Research, Vol 4 (2015)","raw_type":"article"},{"id":"pmh:oai:pubmedcentral.nih.gov:4670012","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4670012","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":"F1000Res","raw_type":"Text"},{"id":"pmh:oai:ri.conicet.gov.ar:11336/113226","is_oa":true,"landing_page_url":"http://hdl.handle.net/11336/113226","pdf_url":null,"source":{"id":"https://openalex.org/S4306402641","display_name":"LA Referencia (Red Federada de Repositorios Institucionales de Publicaciones Cient\u00edficas)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4383465926","host_organization_name":"LA Referencia","host_organization_lineage":["https://openalex.org/I4383465926"],"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":"reponame:CONICET Digital (CONICET)","raw_type":"http://purl.org/coar/resource_type/c_6501"}],"best_oa_location":{"id":"doi:10.12688/f1000research.6773.1","is_oa":true,"landing_page_url":"https://doi.org/10.12688/f1000research.6773.1","pdf_url":"https://f1000research.com/articles/4-477/v1/pdf","source":{"id":"https://openalex.org/S4210239046","display_name":"F1000Research","issn_l":"2046-1402","issn":["2046-1402"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320357","host_organization_name":"Faculty of 1000","host_organization_lineage":["https://openalex.org/P4310320357"],"host_organization_lineage_names":["Faculty of 1000"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"F1000Research","raw_type":"journal-article"},"sustainable_development_goals":[{"display_name":"Industry, innovation and infrastructure","score":0.5799999833106995,"id":"https://metadata.un.org/sdg/9"}],"awards":[{"id":"https://openalex.org/G1168457230","display_name":"Integrated in silico prediction of protein interaction motifs using interactome networks and high-resolution 3-dimensional structures","funder_award_id":"BB/I006230/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"},{"id":"https://openalex.org/G1260485341","display_name":null,"funder_award_id":"BB/I006230/1","funder_id":"https://openalex.org/F4320334629","funder_display_name":"Biotechnology and Biological Sciences Research Council"}],"funders":[{"id":"https://openalex.org/F4320320965","display_name":"University of New South Wales","ror":"https://ror.org/03r8z3t63"},{"id":"https://openalex.org/F4320332167","display_name":"Directorate for Biological Sciences","ror":"https://ror.org/001xhss06"},{"id":"https://openalex.org/F4320334629","display_name":"Biotechnology and Biological Sciences Research Council","ror":"https://ror.org/00cwqg982"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W1557511881.pdf","grobid_xml":"https://content.openalex.org/works/W1557511881.grobid-xml"},"referenced_works_count":27,"referenced_works":["https://openalex.org/W1608829981","https://openalex.org/W1975622992","https://openalex.org/W1986751941","https://openalex.org/W1992756342","https://openalex.org/W1992983658","https://openalex.org/W2016189721","https://openalex.org/W2016619208","https://openalex.org/W2023333666","https://openalex.org/W2043764521","https://openalex.org/W2052033556","https://openalex.org/W2079635715","https://openalex.org/W2082374610","https://openalex.org/W2098214922","https://openalex.org/W2102956364","https://openalex.org/W2108203465","https://openalex.org/W2110371871","https://openalex.org/W2127322768","https://openalex.org/W2134396951","https://openalex.org/W2142678478","https://openalex.org/W2149943211","https://openalex.org/W2156407548","https://openalex.org/W2159675211","https://openalex.org/W2160421210","https://openalex.org/W2165958610","https://openalex.org/W2268166060","https://openalex.org/W2274648271","https://openalex.org/W2286948044"],"related_works":["https://openalex.org/W2116726748","https://openalex.org/W2098932404","https://openalex.org/W2161189461","https://openalex.org/W2803517106","https://openalex.org/W4240507550","https://openalex.org/W1967142621","https://openalex.org/W1994428965","https://openalex.org/W2106830745","https://openalex.org/W2161062388","https://openalex.org/W2095400231"],"abstract_inverted_index":{"Short":[0],"linear":[1],"motifs":[2],"(SLiMs)":[3],"are":[4,36,210,245],"small":[5],"protein":[6,193],"sequence":[7,47],"patterns":[8,48],"that":[9],"mediate":[10],"a":[11,60,76,111,192,197],"large":[12],"number":[13],"of":[14,40,68,94,100,134,149,180,199],"critical":[15,104],"protein-protein":[16],"interactions,":[17],"involved":[18],"in":[19,53],"processes":[20],"such":[21,126],"as":[22,127],"complex":[23],"formation,":[24],"signal":[25],"transduction,":[26],"localisation":[27],"and":[28,35,91,119,144,146,171,223,232,243,248],"stabilisation.":[29],"SLiMs":[30,151],"show":[31],"rapid":[32],"evolutionary":[33,86],"dynamics":[34],"frequently":[37],"the":[38,69,85,95,135,178,181,215,240],"targets":[39],"molecular":[41],"mimicry":[42],"by":[43],"pathogens.":[44],"Identifying":[45],"enriched":[46],"due":[49],"to":[50,58,79,115,161,230],"convergent":[51],"evolution":[52],"non-homologous":[54],"proteins":[55,121],"has":[56],"proven":[57],"be":[59,228],"successful":[61,106],"strategy":[62],"for":[63,105,138,168,220],"computational":[64],"SLiM":[65,81,107,141,175],"prediction.":[66,108],"Tools":[67],"SLiMSuite":[70,136,216,244],"package":[71,137],"use":[72],"this":[73,154],"strategy,":[74],"using":[75],"statistical":[77],"model":[78],"identify":[80],"enrichment":[82],"based":[83,122],"on":[84,123,214,239],"relationships,":[87],"amino":[88],"acid":[89],"composition":[90],"predicted":[92,174],"disorder":[93],"input":[96,101],"proteins.":[97],"The":[98],"quality":[99,165],"data":[102],"is":[103],"Cytoscape":[109],"provides":[110],"user-friendly,":[112],"interactive":[113,155],"environment":[114],"explore":[116],"interaction":[117,129],"networks":[118],"select":[120,189],"common":[124],"features,":[125],"shared":[128],"partners.":[130],"SLiMScape":[131,157,225,242],"embeds":[132],"tools":[133],"de":[139],"novo":[140],"discovery":[142],"(SLiMFinder":[143],"QSLiMFinder)":[145],"identifying":[147],"occurrences/enrichment":[148],"known":[150],"(SLiMProb)":[152],"within":[153,177],"framework.":[156],"makes":[158],"it":[159],"easier":[160],"(1)":[162],"generate":[163,184],"high":[164],"hypothesis-driven":[166],"datasets":[167],"these":[169],"tools,":[170],"(2)":[172],"visualise":[173,233],"occurrences":[176],"context":[179],"network.":[182],"To":[183],"new":[185],"predictions,":[186],"users":[187],"can":[188,226],"nodes":[190],"from":[191,235],"network":[194],"or":[195],"provide":[196],"set":[198],"Uniprot":[200],"identifiers.":[201],"SLiMProb":[202],"also":[203,227],"requires":[204],"additional":[205],"query":[206],"motif":[207],"input.":[208],"Jobs":[209],"then":[211],"run":[212,237],"remotely":[213],"server":[217],"(":[218],"http://rest.slimsuite.unsw.edu.au)":[219],"subsequent":[221],"retrieval":[222],"visualisation.":[224],"used":[229],"retrieve":[231],"results":[234],"jobs":[236],"directly":[238],"server.":[241],"open":[246],"source":[247],"freely":[249],"available":[250],"via":[251],"GitHub":[252],"under":[253],"GNU":[254],"licenses.":[255]},"counts_by_year":[{"year":2018,"cited_by_count":1}],"updated_date":"2026-07-15T18:14:33.161393","created_date":"2025-10-10T00:00:00"}
