{"id":"https://openalex.org/W2588940733","doi":"https://doi.org/10.1186/s12859-016-1448-0","title":"Interactive exploration of ligand transportation through protein tunnels","display_name":"Interactive exploration of ligand transportation through protein tunnels","publication_year":2017,"publication_date":"2017-02-01","ids":{"openalex":"https://openalex.org/W2588940733","doi":"https://doi.org/10.1186/s12859-016-1448-0","mag":"2588940733","pmid":"https://pubmed.ncbi.nlm.nih.gov/28251878"},"language":"en","primary_location":{"id":"doi:10.1186/s12859-016-1448-0","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-016-1448-0","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-016-1448-0","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-016-1448-0","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5067830242","display_name":"Katar\u00edna Furmanov\u00e1","orcid":"https://orcid.org/0000-0003-2805-8784"},"institutions":[{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]}],"countries":["CZ"],"is_corresponding":true,"raw_author_name":"Katar\u00edna Furmanov\u00e1","raw_affiliation_strings":["Masaryk University, Brno, Czech Republic"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Masaryk University, Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087183232","display_name":"Miroslava Jare\u0161ov\u00e1","orcid":null},"institutions":[{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Miroslava Jare\u0161ov\u00e1","raw_affiliation_strings":["Masaryk University, Brno, Czech Republic"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Masaryk University, Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039343836","display_name":"Jan By\u0161ka","orcid":"https://orcid.org/0000-0001-9483-7562"},"institutions":[{"id":"https://openalex.org/I4432739","display_name":"University of Bergen","ror":"https://ror.org/03zga2b32","country_code":"NO","type":"education","lineage":["https://openalex.org/I4432739"]},{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]}],"countries":["CZ","NO"],"is_corresponding":false,"raw_author_name":"Jan By\u0161ka","raw_affiliation_strings":["Masaryk University, Brno, Czech Republic. jan.byska@gmail.com","University of Bergen, Bergen, Norway. jan.byska@gmail.com","Masaryk University, Brno, Czech Republic"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Masaryk University, Brno, Czech Republic. jan.byska@gmail.com","institution_ids":["https://openalex.org/I21449261"]},{"raw_affiliation_string":"University of Bergen, Bergen, Norway. jan.byska@gmail.com","institution_ids":["https://openalex.org/I4432739"]},{"raw_affiliation_string":"Masaryk University, Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5019441497","display_name":"Adam Jur\u010d\u00edk","orcid":null},"institutions":[{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Adam Jur\u010d\u00edk","raw_affiliation_strings":["Masaryk University, Brno, Czech Republic"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Masaryk University, Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5025345988","display_name":"J\u00falius Parulek","orcid":null},"institutions":[{"id":"https://openalex.org/I4432739","display_name":"University of Bergen","ror":"https://ror.org/03zga2b32","country_code":"NO","type":"education","lineage":["https://openalex.org/I4432739"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"J\u00falius Parulek","raw_affiliation_strings":["University of Bergen, Bergen, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Bergen, Bergen, Norway","institution_ids":["https://openalex.org/I4432739"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5000755776","display_name":"Helwig Hauser","orcid":"https://orcid.org/0000-0003-0395-3192"},"institutions":[{"id":"https://openalex.org/I4432739","display_name":"University of Bergen","ror":"https://ror.org/03zga2b32","country_code":"NO","type":"education","lineage":["https://openalex.org/I4432739"]}],"countries":["NO"],"is_corresponding":false,"raw_author_name":"Helwig Hauser","raw_affiliation_strings":["University of Bergen, Bergen, Norway"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"University of Bergen, Bergen, Norway","institution_ids":["https://openalex.org/I4432739"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5022022242","display_name":"Barbora Kozl\u00edkov\u00e1","orcid":"https://orcid.org/0000-0003-0045-0872"},"institutions":[{"id":"https://openalex.org/I21449261","display_name":"Masaryk University","ror":"https://ror.org/02j46qs45","country_code":"CZ","type":"education","lineage":["https://openalex.org/I21449261"]}],"countries":["CZ"],"is_corresponding":false,"raw_author_name":"Barbora Kozl\u00edkov\u00e1","raw_affiliation_strings":["Masaryk University, Brno, Czech Republic"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Masaryk University, Brno, Czech Republic","institution_ids":["https://openalex.org/I21449261"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":7,"corresponding_author_ids":["https://openalex.org/A5067830242"],"corresponding_institution_ids":["https://openalex.org/I21449261"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":0.7838,"has_fulltext":true,"cited_by_count":15,"citation_normalized_percentile":{"value":0.70495392,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":98},"biblio":{"volume":"18","issue":"S2","first_page":"22","last_page":"22"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.7121000289916992,"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":0.7121000289916992,"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/T10211","display_name":"Computational Drug Discovery Methods","score":0.07100000232458115,"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/T13326","display_name":"Biochemical and Structural Characterization","score":0.02979999966919422,"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/domain","display_name":"Domain (mathematical analysis)","score":0.625213086605072},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6200973987579346},{"id":"https://openalex.org/keywords/ligand","display_name":"Ligand (biochemistry)","score":0.6160433888435364},{"id":"https://openalex.org/keywords/trajectory","display_name":"Trajectory","score":0.5843760967254639},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.5460978150367737},{"id":"https://openalex.org/keywords/process","display_name":"Process (computing)","score":0.45834892988204956},{"id":"https://openalex.org/keywords/visualization","display_name":"Visualization","score":0.4342794716358185},{"id":"https://openalex.org/keywords/path","display_name":"Path (computing)","score":0.4139879047870636},{"id":"https://openalex.org/keywords/human\u2013computer-interaction","display_name":"Human\u2013computer interaction","score":0.3984071612358093},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3584015369415283},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.23683255910873413},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.22143667936325073},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.1800900399684906},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.16070055961608887},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.12251776456832886},{"id":"https://openalex.org/keywords/physics","display_name":"Physics","score":0.11288821697235107},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.1030663251876831}],"concepts":[{"id":"https://openalex.org/C36503486","wikidata":"https://www.wikidata.org/wiki/Q11235244","display_name":"Domain (mathematical analysis)","level":2,"score":0.625213086605072},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6200973987579346},{"id":"https://openalex.org/C116569031","wikidata":"https://www.wikidata.org/wiki/Q899107","display_name":"Ligand (biochemistry)","level":3,"score":0.6160433888435364},{"id":"https://openalex.org/C13662910","wikidata":"https://www.wikidata.org/wiki/Q193139","display_name":"Trajectory","level":2,"score":0.5843760967254639},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.5460978150367737},{"id":"https://openalex.org/C98045186","wikidata":"https://www.wikidata.org/wiki/Q205663","display_name":"Process (computing)","level":2,"score":0.45834892988204956},{"id":"https://openalex.org/C36464697","wikidata":"https://www.wikidata.org/wiki/Q451553","display_name":"Visualization","level":2,"score":0.4342794716358185},{"id":"https://openalex.org/C2777735758","wikidata":"https://www.wikidata.org/wiki/Q817765","display_name":"Path (computing)","level":2,"score":0.4139879047870636},{"id":"https://openalex.org/C107457646","wikidata":"https://www.wikidata.org/wiki/Q207434","display_name":"Human\u2013computer interaction","level":1,"score":0.3984071612358093},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3584015369415283},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.23683255910873413},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.22143667936325073},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.1800900399684906},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.16070055961608887},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.12251776456832886},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.11288821697235107},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.1030663251876831},{"id":"https://openalex.org/C170493617","wikidata":"https://www.wikidata.org/wiki/Q208467","display_name":"Receptor","level":2,"score":0.0},{"id":"https://openalex.org/C199539241","wikidata":"https://www.wikidata.org/wiki/Q7748","display_name":"Law","level":1,"score":0.0},{"id":"https://openalex.org/C134306372","wikidata":"https://www.wikidata.org/wiki/Q7754","display_name":"Mathematical analysis","level":1,"score":0.0},{"id":"https://openalex.org/C17744445","wikidata":"https://www.wikidata.org/wiki/Q36442","display_name":"Political science","level":0,"score":0.0},{"id":"https://openalex.org/C1276947","wikidata":"https://www.wikidata.org/wiki/Q333","display_name":"Astronomy","level":1,"score":0.0},{"id":"https://openalex.org/C94625758","wikidata":"https://www.wikidata.org/wiki/Q7163","display_name":"Politics","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D000596","descriptor_name":"Amino Acids","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D007091","descriptor_name":"Image Processing, Computer-Assisted","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":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008958","descriptor_name":"Models, Molecular","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":"D020134","descriptor_name":"Catalytic Domain","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020134","descriptor_name":"Catalytic Domain","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020134","descriptor_name":"Catalytic Domain","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"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}],"locations_count":4,"locations":[{"id":"doi:10.1186/s12859-016-1448-0","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-016-1448-0","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-016-1448-0","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:28251878","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28251878","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":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:bora.uib.no:1956/16634","is_oa":true,"landing_page_url":"https://hdl.handle.net/1956/16634","pdf_url":null,"source":{"id":"https://openalex.org/S4306400085","display_name":"Bergen Open Research Archive (BORA) (University of Bergen)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4432739","host_organization_name":"University of Bergen","host_organization_lineage":["https://openalex.org/I4432739"],"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":"BMC Bioinformatics","raw_type":"info:eu-repo/semantics/other"},{"id":"pmh:oai:pubmedcentral.nih.gov:5333178","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5333178","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":"BMC Bioinformatics","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1186/s12859-016-1448-0","is_oa":true,"landing_page_url":"https://doi.org/10.1186/s12859-016-1448-0","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/s12859-016-1448-0","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G2196299318","display_name":null,"funder_award_id":"218023","funder_id":"https://openalex.org/F4320323299","funder_display_name":"Norges Forskningsr\u00e5d"}],"funders":[{"id":"https://openalex.org/F4320323078","display_name":"Universitetet i Bergen","ror":"https://ror.org/03zga2b32"},{"id":"https://openalex.org/F4320323299","display_name":"Norges Forskningsr\u00e5d","ror":"https://ror.org/00epmv149"},{"id":"https://openalex.org/F4320326548","display_name":"Masarykova Univerzita","ror":"https://ror.org/02j46qs45"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W2588940733.pdf"},"referenced_works_count":25,"referenced_works":["https://openalex.org/W1527768716","https://openalex.org/W1963821710","https://openalex.org/W1969598347","https://openalex.org/W1974635207","https://openalex.org/W2034526679","https://openalex.org/W2057649846","https://openalex.org/W2091392856","https://openalex.org/W2099598754","https://openalex.org/W2109606373","https://openalex.org/W2112777640","https://openalex.org/W2114765431","https://openalex.org/W2114791275","https://openalex.org/W2117895438","https://openalex.org/W2126152274","https://openalex.org/W2127803531","https://openalex.org/W2128934301","https://openalex.org/W2137825366","https://openalex.org/W2140387095","https://openalex.org/W2141891891","https://openalex.org/W2145247721","https://openalex.org/W2155758860","https://openalex.org/W2160715766","https://openalex.org/W2240308009","https://openalex.org/W2756608131","https://openalex.org/W4210813334"],"related_works":["https://openalex.org/W2068608913","https://openalex.org/W4323768008","https://openalex.org/W3124914020","https://openalex.org/W3131574667","https://openalex.org/W2141033859","https://openalex.org/W4248382324","https://openalex.org/W2077542787","https://openalex.org/W4360995134","https://openalex.org/W2071701083","https://openalex.org/W2374436537"],"abstract_inverted_index":{"BACKGROUND:":[0],"Protein":[1],"structures":[2],"and":[3,15,37,48,57,108,146,184,204],"their":[4],"interaction":[5],"with":[6,149],"ligands":[7],"have":[8],"been":[9],"in":[10],"the":[11,26,42,54,63,68,71,90,93,98,106,116,124,141,170,178,185,193,196,201,207],"focus":[12],"of":[13,23,46,53,70,97,105,120,140,152,159,200],"biochemistry":[14],"structural":[16],"biology":[17],"research":[18],"for":[19],"decades.":[20],"The":[21,129,157,173],"transportation":[22,56],"ligand":[24,43,55,99,107,127,202,208],"into":[25],"protein":[27,182],"active":[28,117],"site":[29],"is":[30,131,162],"often":[31],"complex":[32],"process,":[33],"driven":[34],"by":[35,101,133,169,177],"geometric":[36],"physico-chemical":[38],"properties,":[39],"which":[40],"renders":[41],"path":[44],"full":[45],"jitter":[47],"impasses.":[49],"This":[50],"prevents":[51],"understanding":[52],"reasoning":[58],"behind":[59],"its":[60,109,113],"behavior":[61],"along":[62],"path.":[64],"RESULTS:":[65],"To":[66],"address":[67],"needs":[69],"domain":[72,171,179],"experts":[73,180],"we":[74],"design":[75],"an":[76],"explorative":[77],"visualization":[78],"solution":[79],"based":[80],"on":[81,164],"a":[82],"multi-scale":[83],"simplification":[84],"model.":[85],"It":[86],"helps":[87,190],"to":[88,92,115,191,195,205],"navigate":[89,192],"user":[91,194],"most":[94,197],"interesting":[95,198],"parts":[96,199],"trajectory":[100,203],"exploring":[102],"different":[103],"attributes":[104],"movement,":[110],"such":[111],"as":[112],"distance":[114],"site,":[118],"changes":[119],"amino":[121,154],"acids":[122],"lining":[123],"ligand,":[125],"or":[126],"\"stuckness\".":[128],"process":[130],"supported":[132],"three":[134],"linked":[135],"views":[136],"-":[137],"3D":[138],"representation":[139,151],"simplified":[142],"trajectory,":[143],"scatterplot":[144],"matrix,":[145],"bar":[147],"charts":[148],"line":[150],"ligand-lining":[153],"acids.":[155],"CONCLUSIONS:":[156],"usage":[158],"our":[160],"tool":[161,174],"demonstrated":[163],"molecular":[165],"dynamics":[166],"simulations":[167],"provided":[168],"experts.":[172],"was":[175],"tested":[176],"from":[181],"engineering":[183],"results":[186],"confirm":[187],"that":[188],"it":[189],"understand":[206],"behavior.":[209]},"counts_by_year":[{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":1},{"year":2022,"cited_by_count":5},{"year":2021,"cited_by_count":1},{"year":2020,"cited_by_count":1},{"year":2019,"cited_by_count":3},{"year":2018,"cited_by_count":3}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
