{"id":"https://openalex.org/W2919319795","doi":"https://doi.org/10.1093/bioinformatics/btz143","title":"Aggrescan3D standalone package for structure-based prediction of protein aggregation properties","display_name":"Aggrescan3D standalone package for structure-based prediction of protein aggregation properties","publication_year":2019,"publication_date":"2019-02-27","ids":{"openalex":"https://openalex.org/W2919319795","doi":"https://doi.org/10.1093/bioinformatics/btz143","mag":"2919319795","pmid":"https://pubmed.ncbi.nlm.nih.gov/30825368"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz143","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz143","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/A5078317077","display_name":"Aleksander Kuriata","orcid":null},"institutions":[{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Aleksander Kuriata","raw_affiliation_strings":["Biological and Chemical Research Centre, Department of Chemistry, University of Warsaw, Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Biological and Chemical Research Centre, Department of Chemistry, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5002785720","display_name":"Valent\u00edn Iglesias","orcid":"https://orcid.org/0000-0002-6133-0869"},"institutions":[{"id":"https://openalex.org/I123044942","display_name":"Universitat Aut\u00f2noma de Barcelona","ror":"https://ror.org/052g8jq94","country_code":"ES","type":"education","lineage":["https://openalex.org/I123044942"]}],"countries":["ES"],"is_corresponding":false,"raw_author_name":"Valentin Iglesias","raw_affiliation_strings":["Institut de Biotecnologia i de Biomedicina and Departament de Bioqu\u00edmica i Biologia Molecular, Universitat Aut\u00f2noma de Barcelona, Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Institut de Biotecnologia i de Biomedicina and Departament de Bioqu\u00edmica i Biologia Molecular, Universitat Aut\u00f2noma de Barcelona, Barcelona, Spain","institution_ids":["https://openalex.org/I123044942"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5023082406","display_name":"Mateusz Kurci\u0144ski","orcid":"https://orcid.org/0000-0002-5385-2069"},"institutions":[{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":false,"raw_author_name":"Mateusz Kurcinski","raw_affiliation_strings":["Biological and Chemical Research Centre, Department of Chemistry, University of Warsaw, Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Biological and Chemical Research Centre, Department of Chemistry, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025858582","display_name":"Salvador Ventura","orcid":"https://orcid.org/0000-0002-9652-6351"},"institutions":[{"id":"https://openalex.org/I123044942","display_name":"Universitat Aut\u00f2noma de Barcelona","ror":"https://ror.org/052g8jq94","country_code":"ES","type":"education","lineage":["https://openalex.org/I123044942"]}],"countries":["ES"],"is_corresponding":true,"raw_author_name":"Salvador Ventura","raw_affiliation_strings":["Institut de Biotecnologia i de Biomedicina and Departament de Bioqu\u00edmica i Biologia Molecular, Universitat Aut\u00f2noma de Barcelona, Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"Institut de Biotecnologia i de Biomedicina and Departament de Bioqu\u00edmica i Biologia Molecular, Universitat Aut\u00f2noma de Barcelona, Barcelona, Spain","institution_ids":["https://openalex.org/I123044942"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5006850152","display_name":"Sebastian Kmiecik","orcid":"https://orcid.org/0000-0001-7623-0935"},"institutions":[{"id":"https://openalex.org/I4654613","display_name":"University of Warsaw","ror":"https://ror.org/039bjqg32","country_code":"PL","type":"education","lineage":["https://openalex.org/I4654613"]}],"countries":["PL"],"is_corresponding":true,"raw_author_name":"Sebastian Kmiecik","raw_affiliation_strings":["Biological and Chemical Research Centre, Department of Chemistry, University of Warsaw, Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Biological and Chemical Research Centre, Department of Chemistry, University of Warsaw, Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5006850152","https://openalex.org/A5025858582"],"corresponding_institution_ids":["https://openalex.org/I123044942","https://openalex.org/I4654613"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.5342,"has_fulltext":false,"cited_by_count":36,"citation_normalized_percentile":{"value":0.82700463,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":99},"biblio":{"volume":"35","issue":"19","first_page":"3834","last_page":"3835"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9977999925613403,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9977999925613403,"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/T11162","display_name":"Enzyme Structure and Function","score":0.9905999898910522,"subfield":{"id":"https://openalex.org/subfields/2505","display_name":"Materials Chemistry"},"field":{"id":"https://openalex.org/fields/25","display_name":"Materials Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T11124","display_name":"Protein purification and stability","score":0.9897000193595886,"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/r-package","display_name":"R package","score":0.8245576620101929},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7031391263008118},{"id":"https://openalex.org/keywords/software-package","display_name":"Software package","score":0.5101225972175598},{"id":"https://openalex.org/keywords/protein-structure-prediction","display_name":"Protein structure prediction","score":0.4125620722770691},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.3848263621330261},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.36967170238494873},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.33151212334632874},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.24446234107017517},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.21758762001991272},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.12345045804977417}],"concepts":[{"id":"https://openalex.org/C2984074130","wikidata":"https://www.wikidata.org/wiki/Q73539779","display_name":"R package","level":2,"score":0.8245576620101929},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7031391263008118},{"id":"https://openalex.org/C3020440742","wikidata":"https://www.wikidata.org/wiki/Q1176855","display_name":"Software package","level":3,"score":0.5101225972175598},{"id":"https://openalex.org/C18051474","wikidata":"https://www.wikidata.org/wiki/Q899656","display_name":"Protein structure prediction","level":3,"score":0.4125620722770691},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.3848263621330261},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.36967170238494873},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.33151212334632874},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.24446234107017517},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.21758762001991272},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.12345045804977417},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011487","descriptor_name":"Protein Conformation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011506","descriptor_name":"Proteins","qualifier_ui":null,"qualifier_name":null,"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":"D012995","descriptor_name":"Solubility","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012995","descriptor_name":"Solubility","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012995","descriptor_name":"Solubility","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D066329","descriptor_name":"Protein Aggregates","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D066329","descriptor_name":"Protein Aggregates","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D066329","descriptor_name":"Protein Aggregates","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/btz143","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz143","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:30825368","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30825368","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":[],"awards":[{"id":"https://openalex.org/G5525800324","display_name":null,"funder_award_id":"BIO2016 78310-R","funder_id":"https://openalex.org/F4320321837","funder_display_name":"Ministerio de Econom\u00eda y Competitividad"}],"funders":[{"id":"https://openalex.org/F4320321837","display_name":"Ministerio de Econom\u00eda y Competitividad","ror":"https://ror.org/034900433"}],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":15,"referenced_works":["https://openalex.org/W2001090783","https://openalex.org/W2023490488","https://openalex.org/W2059093611","https://openalex.org/W2074726906","https://openalex.org/W2103083136","https://openalex.org/W2133425057","https://openalex.org/W2253581743","https://openalex.org/W2396317614","https://openalex.org/W2411303265","https://openalex.org/W2788217325","https://openalex.org/W2788954552","https://openalex.org/W2883869520","https://openalex.org/W2886024678","https://openalex.org/W2896148359","https://openalex.org/W3099088600"],"related_works":["https://openalex.org/W4389426664","https://openalex.org/W3008797681","https://openalex.org/W2566205467","https://openalex.org/W3012616639","https://openalex.org/W3126000805","https://openalex.org/W3198565742","https://openalex.org/W2010064959","https://openalex.org/W2157390150","https://openalex.org/W2119742499","https://openalex.org/W1985266044"],"abstract_inverted_index":{"A3D":[0,22,45],"standalone":[1,23,46],"is":[2,9,17],"distributed":[3],"under":[4],"the":[5,44],"MIT":[6],"license,":[7],"which":[8],"free":[10],"for":[11,36],"academic":[12],"and":[13,29,33,39],"non-profit":[14],"users.":[15],"It":[16],"implemented":[18],"in":[19,43],"Python.":[20],"The":[21],"source":[24],"code,":[25],"wiki":[26],"with":[27],"documentation":[28],"examples":[30],"of":[31],"use,":[32],"installation":[34],"instructions":[35],"Linux,":[37],"macOS":[38],"Windows":[40],"are":[41],"available":[42],"repository":[47],"at":[48],"https://bitbucket.org/lcbio/aggrescan3d.":[49]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2025,"cited_by_count":6},{"year":2024,"cited_by_count":8},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":6},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":6},{"year":2019,"cited_by_count":3}],"updated_date":"2025-11-06T03:46:38.306776","created_date":"2025-10-10T00:00:00"}