{"id":"https://openalex.org/W2104673267","doi":"https://doi.org/10.1093/bioinformatics/btp512","title":"PiSQRD: a web server for decomposing proteins into quasi-rigid dynamical domains","display_name":"PiSQRD: a web server for decomposing proteins into quasi-rigid dynamical domains","publication_year":2009,"publication_date":"2009-08-20","ids":{"openalex":"https://openalex.org/W2104673267","doi":"https://doi.org/10.1093/bioinformatics/btp512","mag":"2104673267","pmid":"https://pubmed.ncbi.nlm.nih.gov/19696046"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btp512","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp512","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/20/2743/48995015/bioinformatics_25_20_2743.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/25/20/2743/48995015/bioinformatics_25_20_2743.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5015780191","display_name":"T. Aleksiev","orcid":null},"institutions":[{"id":"https://openalex.org/I138549579","display_name":"Scuola Internazionale Superiore di Studi Avanzati","ror":"https://ror.org/004fze387","country_code":"IT","type":"education","lineage":["https://openalex.org/I138549579"]},{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]}],"countries":["IT"],"is_corresponding":true,"raw_author_name":"T. Aleksiev","raw_affiliation_strings":["1 Scuola Internazionale Superiore di Studi Avanzati and eLab, 2CNR-INFM Democritos Simulation Centre, via Beirut 2-4, 34151 Trieste and 3Italian Institute of Technology, Genoa, Italy"],"affiliations":[{"raw_affiliation_string":"1 Scuola Internazionale Superiore di Studi Avanzati and eLab, 2CNR-INFM Democritos Simulation Centre, via Beirut 2-4, 34151 Trieste and 3Italian Institute of Technology, Genoa, Italy","institution_ids":["https://openalex.org/I138549579","https://openalex.org/I30771326"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5061019012","display_name":"Raffaello Potestio","orcid":"https://orcid.org/0000-0001-6408-9380"},"institutions":[{"id":"https://openalex.org/I138549579","display_name":"Scuola Internazionale Superiore di Studi Avanzati","ror":"https://ror.org/004fze387","country_code":"IT","type":"education","lineage":["https://openalex.org/I138549579"]},{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"R. Potestio","raw_affiliation_strings":["1 Scuola Internazionale Superiore di Studi Avanzati and eLab, 2CNR-INFM Democritos Simulation Centre, via Beirut 2-4, 34151 Trieste and 3Italian Institute of Technology, Genoa, Italy"],"affiliations":[{"raw_affiliation_string":"1 Scuola Internazionale Superiore di Studi Avanzati and eLab, 2CNR-INFM Democritos Simulation Centre, via Beirut 2-4, 34151 Trieste and 3Italian Institute of Technology, Genoa, Italy","institution_ids":["https://openalex.org/I138549579","https://openalex.org/I30771326"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5042994004","display_name":"Francesco Pontiggia","orcid":"https://orcid.org/0000-0003-2569-6238"},"institutions":[{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]},{"id":"https://openalex.org/I138549579","display_name":"Scuola Internazionale Superiore di Studi Avanzati","ror":"https://ror.org/004fze387","country_code":"IT","type":"education","lineage":["https://openalex.org/I138549579"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"F. Pontiggia","raw_affiliation_strings":["1 Scuola Internazionale Superiore di Studi Avanzati and eLab, 2CNR-INFM Democritos Simulation Centre, via Beirut 2-4, 34151 Trieste and 3Italian Institute of Technology, Genoa, Italy"],"affiliations":[{"raw_affiliation_string":"1 Scuola Internazionale Superiore di Studi Avanzati and eLab, 2CNR-INFM Democritos Simulation Centre, via Beirut 2-4, 34151 Trieste and 3Italian Institute of Technology, Genoa, Italy","institution_ids":["https://openalex.org/I138549579","https://openalex.org/I30771326"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5078180852","display_name":"Stefano Cozzini","orcid":"https://orcid.org/0000-0001-6049-5242"},"institutions":[{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]},{"id":"https://openalex.org/I138549579","display_name":"Scuola Internazionale Superiore di Studi Avanzati","ror":"https://ror.org/004fze387","country_code":"IT","type":"education","lineage":["https://openalex.org/I138549579"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"S. Cozzini","raw_affiliation_strings":["1 Scuola Internazionale Superiore di Studi Avanzati and eLab, 2CNR-INFM Democritos Simulation Centre, via Beirut 2-4, 34151 Trieste and 3Italian Institute of Technology, Genoa, Italy"],"affiliations":[{"raw_affiliation_string":"1 Scuola Internazionale Superiore di Studi Avanzati and eLab, 2CNR-INFM Democritos Simulation Centre, via Beirut 2-4, 34151 Trieste and 3Italian Institute of Technology, Genoa, Italy","institution_ids":["https://openalex.org/I138549579","https://openalex.org/I30771326"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5083284785","display_name":"Cristian Micheletti","orcid":"https://orcid.org/0000-0002-1022-1638"},"institutions":[{"id":"https://openalex.org/I30771326","display_name":"Italian Institute of Technology","ror":"https://ror.org/042t93s57","country_code":"IT","type":"facility","lineage":["https://openalex.org/I30771326"]},{"id":"https://openalex.org/I138549579","display_name":"Scuola Internazionale Superiore di Studi Avanzati","ror":"https://ror.org/004fze387","country_code":"IT","type":"education","lineage":["https://openalex.org/I138549579"]}],"countries":["IT"],"is_corresponding":false,"raw_author_name":"C. Micheletti","raw_affiliation_strings":["1 Scuola Internazionale Superiore di Studi Avanzati and eLab, 2CNR-INFM Democritos Simulation Centre, via Beirut 2-4, 34151 Trieste and 3Italian Institute of Technology, Genoa, Italy"],"affiliations":[{"raw_affiliation_string":"1 Scuola Internazionale Superiore di Studi Avanzati and eLab, 2CNR-INFM Democritos Simulation Centre, via Beirut 2-4, 34151 Trieste and 3Italian Institute of Technology, Genoa, Italy","institution_ids":["https://openalex.org/I138549579","https://openalex.org/I30771326"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5015780191"],"corresponding_institution_ids":["https://openalex.org/I138549579","https://openalex.org/I30771326"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.7522,"has_fulltext":false,"cited_by_count":48,"citation_normalized_percentile":{"value":0.84240433,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":98},"biblio":{"volume":"25","issue":"20","first_page":"2743","last_page":"2744"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9998999834060669,"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":0.9998999834060669,"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":0.9998000264167786,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9983000159263611,"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/computer-science","display_name":"Computer science","score":0.6497737169265747},{"id":"https://openalex.org/keywords/web-server","display_name":"Web server","score":0.5847668051719666},{"id":"https://openalex.org/keywords/java","display_name":"Java","score":0.5243188142776489},{"id":"https://openalex.org/keywords/graphics","display_name":"Graphics","score":0.5185192823410034},{"id":"https://openalex.org/keywords/subdivision","display_name":"Subdivision","score":0.44147947430610657},{"id":"https://openalex.org/keywords/web-page","display_name":"Web page","score":0.4167885482311249},{"id":"https://openalex.org/keywords/statistical-physics","display_name":"Statistical physics","score":0.33073270320892334},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.2502717971801758},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.2305983006954193},{"id":"https://openalex.org/keywords/world-wide-web","display_name":"World Wide Web","score":0.18643087148666382},{"id":"https://openalex.org/keywords/the-internet","display_name":"The Internet","score":0.16302546858787537},{"id":"https://openalex.org/keywords/operating-system","display_name":"Operating system","score":0.1570800244808197},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.08185365796089172}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6497737169265747},{"id":"https://openalex.org/C11392498","wikidata":"https://www.wikidata.org/wiki/Q11288","display_name":"Web server","level":3,"score":0.5847668051719666},{"id":"https://openalex.org/C548217200","wikidata":"https://www.wikidata.org/wiki/Q251","display_name":"Java","level":2,"score":0.5243188142776489},{"id":"https://openalex.org/C21442007","wikidata":"https://www.wikidata.org/wiki/Q1027879","display_name":"Graphics","level":2,"score":0.5185192823410034},{"id":"https://openalex.org/C143392562","wikidata":"https://www.wikidata.org/wiki/Q449111","display_name":"Subdivision","level":2,"score":0.44147947430610657},{"id":"https://openalex.org/C21959979","wikidata":"https://www.wikidata.org/wiki/Q36774","display_name":"Web page","level":2,"score":0.4167885482311249},{"id":"https://openalex.org/C121864883","wikidata":"https://www.wikidata.org/wiki/Q677916","display_name":"Statistical physics","level":1,"score":0.33073270320892334},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.2502717971801758},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.2305983006954193},{"id":"https://openalex.org/C136764020","wikidata":"https://www.wikidata.org/wiki/Q466","display_name":"World Wide Web","level":1,"score":0.18643087148666382},{"id":"https://openalex.org/C110875604","wikidata":"https://www.wikidata.org/wiki/Q75","display_name":"The Internet","level":2,"score":0.16302546858787537},{"id":"https://openalex.org/C111919701","wikidata":"https://www.wikidata.org/wiki/Q9135","display_name":"Operating system","level":1,"score":0.1570800244808197},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.08185365796089172},{"id":"https://openalex.org/C147176958","wikidata":"https://www.wikidata.org/wiki/Q77590","display_name":"Civil engineering","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":"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":"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":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D014584","descriptor_name":"User-Computer Interface","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":"D020407","descriptor_name":"Internet","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btp512","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp512","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/20/2743/48995015/bioinformatics_25_20_2743.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:19696046","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/19696046","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:CiteSeerX.psu:10.1.1.872.3081","is_oa":false,"landing_page_url":"http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.872.3081","pdf_url":null,"source":null,"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"http://bioinformatics.oxfordjournals.org/content/early/2009/08/20/bioinformatics.btp512.full.pdf","raw_type":"text"},{"id":"pmh:oai:iris.unitn.it:11572/194236","is_oa":false,"landing_page_url":"https://academic.oup.com/bioinformatics/article/25/20/2743/194355","pdf_url":null,"source":{"id":"https://openalex.org/S4306401913","display_name":"Institutional Research Information System (Universit\u00e0 degli Studi di Trento)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I193223587","host_organization_name":"University of Trento","host_organization_lineage":["https://openalex.org/I193223587"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btp512","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btp512","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/25/20/2743/48995015/bioinformatics_25_20_2743.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":[{"score":0.4699999988079071,"id":"https://metadata.un.org/sdg/7","display_name":"Affordable and clean energy"}],"awards":[],"funders":[],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2104673267.pdf","grobid_xml":"https://content.openalex.org/works/W2104673267.grobid-xml"},"referenced_works_count":10,"referenced_works":["https://openalex.org/W1976728302","https://openalex.org/W1997972388","https://openalex.org/W2001773296","https://openalex.org/W2087284052","https://openalex.org/W2130479394","https://openalex.org/W2146332813","https://openalex.org/W2146770788","https://openalex.org/W2158528359","https://openalex.org/W2162244749","https://openalex.org/W6683859443"],"related_works":["https://openalex.org/W2384806462","https://openalex.org/W4389950792","https://openalex.org/W2375549870","https://openalex.org/W4376632515","https://openalex.org/W2163269603","https://openalex.org/W4205312897","https://openalex.org/W2376164011","https://openalex.org/W1594341569","https://openalex.org/W1511683926","https://openalex.org/W2072426277"],"abstract_inverted_index":{"The":[0],"PiSQRD":[1],"web":[2],"server,":[3],"which":[4],"requires":[5],"Java,":[6],"is":[7],"available":[8],"free":[9],"of":[10],"charge":[11],"for":[12],"academic":[13],"users":[14],"at":[15],"http://pisqrd.escience-lab.org.":[16]},"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":3},{"year":2020,"cited_by_count":5},{"year":2019,"cited_by_count":5},{"year":2018,"cited_by_count":3},{"year":2017,"cited_by_count":2},{"year":2016,"cited_by_count":3},{"year":2015,"cited_by_count":1},{"year":2014,"cited_by_count":5},{"year":2013,"cited_by_count":5},{"year":2012,"cited_by_count":5}],"updated_date":"2026-04-04T16:13:02.066488","created_date":"2025-10-10T00:00:00"}
