{"id":"https://openalex.org/W2958387313","doi":"https://doi.org/10.1093/bioinformatics/btz543","title":"DDT - Drug Discovery Tool: a fast and intuitive graphics user interface for docking and molecular dynamics analysis","display_name":"DDT - Drug Discovery Tool: a fast and intuitive graphics user interface for docking and molecular dynamics analysis","publication_year":2019,"publication_date":"2019-07-11","ids":{"openalex":"https://openalex.org/W2958387313","doi":"https://doi.org/10.1093/bioinformatics/btz543","mag":"2958387313","pmid":"https://pubmed.ncbi.nlm.nih.gov/31304963"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btz543","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz543","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/24/5328/31797903/btz543.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","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":"hybrid","oa_url":"https://academic.oup.com/bioinformatics/article-pdf/35/24/5328/31797903/btz543.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5002124382","display_name":"Simone Aureli","orcid":"https://orcid.org/0000-0002-4938-8603"},"institutions":[{"id":"https://openalex.org/I57201433","display_name":"Universit\u00e0 della Svizzera italiana","ror":"https://ror.org/03c4atk17","country_code":"CH","type":"education","lineage":["https://openalex.org/I57201433"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Simone Aureli","raw_affiliation_strings":["Institute of Computational Science - Center for Computational Medicine in Cardiology, Faculty of Biomedical Sciences , Universit\u00e0 della Svizzera italiana (USI), Lugano CH-6900, Switzerland"],"raw_orcid":"https://orcid.org/0000-0002-4938-8603","affiliations":[{"raw_affiliation_string":"Institute of Computational Science - Center for Computational Medicine in Cardiology, Faculty of Biomedical Sciences , Universit\u00e0 della Svizzera italiana (USI), Lugano CH-6900, Switzerland","institution_ids":["https://openalex.org/I57201433"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5017201543","display_name":"Daniele Di Marino","orcid":"https://orcid.org/0000-0001-6961-3129"},"institutions":[{"id":"https://openalex.org/I122534668","display_name":"Marche Polytechnic University","ror":"https://ror.org/00x69rs40","country_code":"IT","type":"education","lineage":["https://openalex.org/I122534668"]},{"id":"https://openalex.org/I57201433","display_name":"Universit\u00e0 della Svizzera italiana","ror":"https://ror.org/03c4atk17","country_code":"CH","type":"education","lineage":["https://openalex.org/I57201433"]}],"countries":["CH","IT"],"is_corresponding":false,"raw_author_name":"Daniele Di Marino","raw_affiliation_strings":["Department of Life and Environmental Sciences, Polytechnic University of Marche, Ancona , Italy","Institute of Computational Science - Center for Computational Medicine in Cardiology, Faculty of Biomedical Sciences , Universit\u00e0 della Svizzera italiana (USI), Lugano CH-6900, Switzerland"],"raw_orcid":"https://orcid.org/0000-0001-6961-3129","affiliations":[{"raw_affiliation_string":"Department of Life and Environmental Sciences, Polytechnic University of Marche, Ancona , Italy","institution_ids":["https://openalex.org/I122534668"]},{"raw_affiliation_string":"Institute of Computational Science - Center for Computational Medicine in Cardiology, Faculty of Biomedical Sciences , Universit\u00e0 della Svizzera italiana (USI), Lugano CH-6900, Switzerland","institution_ids":["https://openalex.org/I57201433"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5005907422","display_name":"Stefano Raniolo","orcid":"https://orcid.org/0000-0003-4835-8696"},"institutions":[{"id":"https://openalex.org/I57201433","display_name":"Universit\u00e0 della Svizzera italiana","ror":"https://ror.org/03c4atk17","country_code":"CH","type":"education","lineage":["https://openalex.org/I57201433"]}],"countries":["CH"],"is_corresponding":false,"raw_author_name":"Stefano Raniolo","raw_affiliation_strings":["Institute of Computational Science - Center for Computational Medicine in Cardiology, Faculty of Biomedical Sciences , Universit\u00e0 della Svizzera italiana (USI), Lugano CH-6900, Switzerland"],"raw_orcid":"https://orcid.org/0000-0003-4835-8696","affiliations":[{"raw_affiliation_string":"Institute of Computational Science - Center for Computational Medicine in Cardiology, Faculty of Biomedical Sciences , Universit\u00e0 della Svizzera italiana (USI), Lugano CH-6900, Switzerland","institution_ids":["https://openalex.org/I57201433"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5026034661","display_name":"Vittorio Limongelli","orcid":"https://orcid.org/0000-0002-4861-1199"},"institutions":[{"id":"https://openalex.org/I57201433","display_name":"Universit\u00e0 della Svizzera italiana","ror":"https://ror.org/03c4atk17","country_code":"CH","type":"education","lineage":["https://openalex.org/I57201433"]},{"id":"https://openalex.org/I71267560","display_name":"University of Naples Federico II","ror":"https://ror.org/05290cv24","country_code":"IT","type":"education","lineage":["https://openalex.org/I71267560"]}],"countries":["CH","IT"],"is_corresponding":true,"raw_author_name":"Vittorio Limongelli","raw_affiliation_strings":["Department of Pharmacy, University of Naples \u201cFederico II\u201d , Naples I-80131, Italy","Institute of Computational Science - Center for Computational Medicine in Cardiology, Faculty of Biomedical Sciences , Universit\u00e0 della Svizzera italiana (USI), Lugano CH-6900, Switzerland"],"raw_orcid":"https://orcid.org/0000-0002-4861-1199","affiliations":[{"raw_affiliation_string":"Department of Pharmacy, University of Naples \u201cFederico II\u201d , Naples I-80131, Italy","institution_ids":["https://openalex.org/I71267560"]},{"raw_affiliation_string":"Institute of Computational Science - Center for Computational Medicine in Cardiology, Faculty of Biomedical Sciences , Universit\u00e0 della Svizzera italiana (USI), Lugano CH-6900, Switzerland","institution_ids":["https://openalex.org/I57201433"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":3,"corresponding_author_ids":["https://openalex.org/A5026034661"],"corresponding_institution_ids":["https://openalex.org/I57201433","https://openalex.org/I71267560"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":{"value":3618,"currency":"USD","value_usd":3618},"fwci":0.7106,"has_fulltext":true,"cited_by_count":12,"citation_normalized_percentile":{"value":0.73079427,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":97},"biblio":{"volume":"35","issue":"24","first_page":"5328","last_page":"5330"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},"topics":[{"id":"https://openalex.org/T10211","display_name":"Computational Drug Discovery Methods","score":1.0,"subfield":{"id":"https://openalex.org/subfields/1703","display_name":"Computational Theory and Mathematics"},"field":{"id":"https://openalex.org/fields/17","display_name":"Computer Science"},"domain":{"id":"https://openalex.org/domains/3","display_name":"Physical Sciences"}},{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9984999895095825,"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/T10887","display_name":"Bioinformatics and Genomic Networks","score":0.9937999844551086,"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/virtual-screening","display_name":"Virtual screening","score":0.719188928604126},{"id":"https://openalex.org/keywords/docking","display_name":"Docking (animal)","score":0.6746048331260681},{"id":"https://openalex.org/keywords/molecular-dynamics","display_name":"Molecular dynamics","score":0.6497841477394104},{"id":"https://openalex.org/keywords/molecular-graphics","display_name":"Molecular graphics","score":0.6404226422309875},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.596585750579834},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.5395269989967346},{"id":"https://openalex.org/keywords/graphics","display_name":"Graphics","score":0.5291079878807068},{"id":"https://openalex.org/keywords/ranking","display_name":"Ranking (information retrieval)","score":0.46725958585739136},{"id":"https://openalex.org/keywords/computational-science","display_name":"Computational science","score":0.4645196199417114},{"id":"https://openalex.org/keywords/ligand","display_name":"Ligand (biochemistry)","score":0.45761173963546753},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.43427783250808716},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics","score":0.4290532171726227},{"id":"https://openalex.org/keywords/computational-chemistry","display_name":"Computational chemistry","score":0.39667510986328125},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.3772825300693512},{"id":"https://openalex.org/keywords/information-retrieval","display_name":"Information retrieval","score":0.17326825857162476},{"id":"https://openalex.org/keywords/computer-graphics","display_name":"Computer graphics (images)","score":0.14550703763961792},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.14444369077682495}],"concepts":[{"id":"https://openalex.org/C103697762","wikidata":"https://www.wikidata.org/wiki/Q4112105","display_name":"Virtual screening","level":3,"score":0.719188928604126},{"id":"https://openalex.org/C41685203","wikidata":"https://www.wikidata.org/wiki/Q1974042","display_name":"Docking (animal)","level":2,"score":0.6746048331260681},{"id":"https://openalex.org/C59593255","wikidata":"https://www.wikidata.org/wiki/Q901663","display_name":"Molecular dynamics","level":2,"score":0.6497841477394104},{"id":"https://openalex.org/C126766683","wikidata":"https://www.wikidata.org/wiki/Q6896006","display_name":"Molecular graphics","level":3,"score":0.6404226422309875},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.596585750579834},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.5395269989967346},{"id":"https://openalex.org/C21442007","wikidata":"https://www.wikidata.org/wiki/Q1027879","display_name":"Graphics","level":2,"score":0.5291079878807068},{"id":"https://openalex.org/C189430467","wikidata":"https://www.wikidata.org/wiki/Q7293293","display_name":"Ranking (information retrieval)","level":2,"score":0.46725958585739136},{"id":"https://openalex.org/C459310","wikidata":"https://www.wikidata.org/wiki/Q117801","display_name":"Computational science","level":1,"score":0.4645196199417114},{"id":"https://openalex.org/C116569031","wikidata":"https://www.wikidata.org/wiki/Q899107","display_name":"Ligand (biochemistry)","level":3,"score":0.45761173963546753},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.43427783250808716},{"id":"https://openalex.org/C77660652","wikidata":"https://www.wikidata.org/wiki/Q150971","display_name":"Computer graphics","level":2,"score":0.4290532171726227},{"id":"https://openalex.org/C147597530","wikidata":"https://www.wikidata.org/wiki/Q369472","display_name":"Computational chemistry","level":1,"score":0.39667510986328125},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.3772825300693512},{"id":"https://openalex.org/C23123220","wikidata":"https://www.wikidata.org/wiki/Q816826","display_name":"Information retrieval","level":1,"score":0.17326825857162476},{"id":"https://openalex.org/C121684516","wikidata":"https://www.wikidata.org/wiki/Q7600677","display_name":"Computer graphics (images)","level":1,"score":0.14550703763961792},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.14444369077682495},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.0},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.0},{"id":"https://openalex.org/C159110408","wikidata":"https://www.wikidata.org/wiki/Q121176","display_name":"Nursing","level":1,"score":0.0},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008024","descriptor_name":"Ligands","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","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":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D062105","descriptor_name":"Molecular Docking Simulation","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":5,"locations":[{"id":"doi:10.1093/bioinformatics/btz543","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz543","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/24/5328/31797903/btz543.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},{"id":"pmid:31304963","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/31304963","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:iris.univpm.it:11566/278917","is_oa":false,"landing_page_url":"http://hdl.handle.net/11566/278917","pdf_url":null,"source":{"id":"https://openalex.org/S4306402571","display_name":"Universit\u00e0 Politecnica delle Marche (Universit\u00e0 Politecnica delle Marche)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I122534668","host_organization_name":"Marche Polytechnic University","host_organization_lineage":["https://openalex.org/I122534668"],"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"},{"id":"pmh:oai:pubmedcentral.nih.gov:9887484","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/9887484","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":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:zenodo.org:45736","is_oa":true,"landing_page_url":"https://www.openaccessrepository.it/record/45736","pdf_url":null,"source":{"id":"https://openalex.org/S4306402478","display_name":"INFM-OAR (INFN Catania)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210116497","host_organization_name":"Istituto Nazionale di Fisica Nucleare, Sezione di Catania","host_organization_lineage":["https://openalex.org/I4210116497"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"","raw_type":"info:eu-repo/semantics/article"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btz543","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btz543","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/35/24/5328/31797903/btz543.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":"cc-by-nc","license_id":"https://openalex.org/licenses/cc-by-nc","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[{"id":"https://metadata.un.org/sdg/7","display_name":"Affordable and clean energy","score":0.4699999988079071}],"awards":[{"id":"https://openalex.org/G2908895630","display_name":null,"funder_award_id":"200021_163281","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G3422143364","display_name":null,"funder_award_id":"PRIN 2017","funder_id":"https://openalex.org/F4320321873","funder_display_name":"Ministero dell\u2019Istruzione, dell\u2019Universit\u00e0 e della Ricerca"},{"id":"https://openalex.org/G3568388889","display_name":null,"funder_award_id":"CA15135","funder_id":"https://openalex.org/F4320331518","funder_display_name":"Centro Svizzero di Calcolo Scientifico"},{"id":"https://openalex.org/G3854591525","display_name":"Extensive computer simulations investigate TPP1-TERT protein-protein interaction","funder_award_id":"163281","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"},{"id":"https://openalex.org/G5460345811","display_name":null,"funder_award_id":"2017FJZZRC","funder_id":"https://openalex.org/F4320321873","funder_display_name":"Ministero dell\u2019Istruzione, dell\u2019Universit\u00e0 e della Ricerca"},{"id":"https://openalex.org/G993971353","display_name":null,"funder_award_id":"200021","funder_id":"https://openalex.org/F4320320924","funder_display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung"}],"funders":[{"id":"https://openalex.org/F4320306076","display_name":"National Science Foundation","ror":"https://ror.org/021nxhr62"},{"id":"https://openalex.org/F4320320924","display_name":"Schweizerischer Nationalfonds zur F\u00f6rderung der Wissenschaftlichen Forschung","ror":"https://ror.org/00yjd3n13"},{"id":"https://openalex.org/F4320321873","display_name":"Ministero dell\u2019Istruzione, dell\u2019Universit\u00e0 e della Ricerca","ror":"https://ror.org/0166hxq48"},{"id":"https://openalex.org/F4320331518","display_name":"Centro Svizzero di Calcolo Scientifico","ror":null},{"id":"https://openalex.org/F4320331617","display_name":"National Supercomputing Centre Singapore","ror":null}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2958387313.pdf","grobid_xml":"https://content.openalex.org/works/W2958387313.grobid-xml"},"referenced_works_count":7,"referenced_works":["https://openalex.org/W1031578623","https://openalex.org/W2029667189","https://openalex.org/W2030594866","https://openalex.org/W2105668062","https://openalex.org/W2327120009","https://openalex.org/W2936409770","https://openalex.org/W6626923867"],"related_works":["https://openalex.org/W2773493604","https://openalex.org/W2269591907","https://openalex.org/W2027065525","https://openalex.org/W2336040088","https://openalex.org/W2002869446","https://openalex.org/W2038255918","https://openalex.org/W2514580764","https://openalex.org/W2037810710","https://openalex.org/W1974904668","https://openalex.org/W2221819563"],"abstract_inverted_index":{"MOTIVATION:":[0],"The":[1,187],"ligand/protein":[2,43,104,129,196],"binding":[3,44],"interaction":[4],"is":[5,21,54,88,108,121,214],"typically":[6],"investigated":[7],"by":[8],"docking":[9,135],"and":[10,67,72,99,120,137],"molecular":[11],"dynamics":[12],"(MD)":[13],"simulations.":[14,139],"In":[15],"particular,":[16],"docking-based":[17],"virtual":[18],"screening":[19],"(VS)":[20],"used":[22],"to":[23,58,95,123],"select":[24],"the":[25,38,42,47,82,103,114,166,169,174,179,184,190,194,210],"best":[26,195],"ligands":[27,146],"from":[28,132],"database":[29],"of":[30,32,41,50,55,70,128,165,178,189,201],"thousands":[31],"compounds,":[33],"while":[34],"MD":[35,73,138],"calculations":[36,136],"assess":[37],"energy":[39,151],"stability":[40],"complexes.":[45],"Considering":[46],"broad":[48],"use":[49],"these":[51],"techniques,":[52],"it":[53],"great":[56],"demand":[57],"have":[59,80],"one":[60],"single":[61],"software":[62,119,191],"that":[63,87],"allows":[64,192],"a":[65,111,125,158,199],"combined":[66],"fast":[68],"analysis":[69],"VS":[71],"results.":[74],"With":[75],"this":[76],"in":[77,183],"mind,":[78],"we":[79],"developed":[81],"Drug":[83],"Discovery":[84],"Tool":[85],"(DDT)":[86],"an":[89,150],"intuitive":[90],"graphics":[91],"user":[92],"interface":[93],"able":[94,122],"provide":[96],"structural":[97],"data":[98,220],"physico-chemical":[100],"information":[101],"on":[102,149,157],"interaction.":[105],"RESULTS:":[106],"DDT":[107,140,211],"designed":[109],"as":[110],"plugin":[112],"for":[113],"Visual":[115],"Molecular":[116],"Dynamics":[117],"(VMD)":[118],"manage":[124],"large":[126],"number":[127,200],"complexes":[130,197],"obtained":[131],"AutoDock4":[133],"(AD4)":[134],"delivers":[141],"four":[142],"main":[143],"outcomes:":[144],"i)":[145],"ranking":[147,155],"based":[148,156],"score;":[152],"ii)":[153],"ligand":[154],"ligands'":[159,180],"conformation":[160],"cluster":[161],"analysis;":[162],"iii)":[163],"identification":[164],"aminoacids":[167],"forming":[168],"most":[170],"occurrent":[171],"interactions":[172],"with":[173],"ligands;":[175],"iv)":[176],"plot":[177],"center-of-mass":[181],"coordinates":[182],"Cartesian":[185],"space.":[186],"flexibility":[188],"saving":[193],"using":[198],"user-defined":[202],"options.":[203],"AVAILABILITY":[204],"AND":[205],"IMPLEMENTATION:":[206],"DDT_site_1":[207],"(alternative":[208],"DDT_site_2);":[209],"tutorial":[212],"movie":[213],"available":[215,222],"here.":[216],"SUPPLEMENTARY":[217],"INFORMATION:":[218],"Supplementary":[219],"are":[221],"at":[223],"Bioinformatics":[224],"online.":[225]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":3},{"year":2023,"cited_by_count":3},{"year":2022,"cited_by_count":3},{"year":2021,"cited_by_count":1}],"updated_date":"2026-07-19T07:52:34.831488","created_date":"2025-10-10T00:00:00"}
