{"id":"https://openalex.org/W2784287839","doi":"https://doi.org/10.1093/bioinformatics/bty021","title":"PyChimera: use UCSF Chimera modules in any Python 2.7 project","display_name":"PyChimera: use UCSF Chimera modules in any Python 2.7 project","publication_year":2018,"publication_date":"2018-01-09","ids":{"openalex":"https://openalex.org/W2784287839","doi":"https://doi.org/10.1093/bioinformatics/bty021","mag":"2784287839","pmid":"https://pubmed.ncbi.nlm.nih.gov/29340616"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty021","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty021","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/10/1784/25118349/bty021.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/34/10/1784/25118349/bty021.pdf","any_repository_has_fulltext":false},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5101741282","display_name":"Jaime Rodr\u0131\u0301guez-Guerra","orcid":"https://orcid.org/0000-0001-8974-1566"},"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":"Jaime Rodr\u00edguez-Guerra Pedregal","raw_affiliation_strings":["InsiliChem, Departament de Qu\u00edmica, Universitat Aut\u00f2noma de Barcelona, Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"InsiliChem, Departament de Qu\u00edmica, Universitat Aut\u00f2noma de Barcelona, Barcelona, Spain","institution_ids":["https://openalex.org/I123044942"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5076914476","display_name":"Jean\u2010Didier Mar\u00e9chal","orcid":"https://orcid.org/0000-0002-8344-9043"},"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":"Jean-Didier Mar\u00e9chal","raw_affiliation_strings":["InsiliChem, Departament de Qu\u00edmica, Universitat Aut\u00f2noma de Barcelona, Barcelona, Spain"],"affiliations":[{"raw_affiliation_string":"InsiliChem, Departament de Qu\u00edmica, Universitat Aut\u00f2noma de Barcelona, Barcelona, Spain","institution_ids":["https://openalex.org/I123044942"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5076914476","https://openalex.org/A5101741282"],"corresponding_institution_ids":["https://openalex.org/I123044942"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.5825,"has_fulltext":true,"cited_by_count":24,"citation_normalized_percentile":{"value":0.83139172,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":99},"biblio":{"volume":"34","issue":"10","first_page":"1784","last_page":"1785"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9991000294685364,"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":0.9991000294685364,"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":0.9950000047683716,"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":0.9894000291824341,"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/python","display_name":"Python (programming language)","score":0.7675600647926331},{"id":"https://openalex.org/keywords/chimera","display_name":"Chimera (genetics)","score":0.733450174331665},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.7132734656333923},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.5950456857681274},{"id":"https://openalex.org/keywords/scripting-language","display_name":"Scripting language","score":0.5044814348220825},{"id":"https://openalex.org/keywords/software","display_name":"Software","score":0.4969628155231476},{"id":"https://openalex.org/keywords/software-engineering","display_name":"Software engineering","score":0.4239773452281952},{"id":"https://openalex.org/keywords/codebase","display_name":"Codebase","score":0.41872546076774597},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1332933008670807}],"concepts":[{"id":"https://openalex.org/C519991488","wikidata":"https://www.wikidata.org/wiki/Q28865","display_name":"Python (programming language)","level":2,"score":0.7675600647926331},{"id":"https://openalex.org/C30278631","wikidata":"https://www.wikidata.org/wiki/Q281721","display_name":"Chimera (genetics)","level":3,"score":0.733450174331665},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.7132734656333923},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.5950456857681274},{"id":"https://openalex.org/C61423126","wikidata":"https://www.wikidata.org/wiki/Q187432","display_name":"Scripting language","level":2,"score":0.5044814348220825},{"id":"https://openalex.org/C2777904410","wikidata":"https://www.wikidata.org/wiki/Q7397","display_name":"Software","level":2,"score":0.4969628155231476},{"id":"https://openalex.org/C115903868","wikidata":"https://www.wikidata.org/wiki/Q80993","display_name":"Software engineering","level":1,"score":0.4239773452281952},{"id":"https://openalex.org/C51929080","wikidata":"https://www.wikidata.org/wiki/Q2425187","display_name":"Codebase","level":3,"score":0.41872546076774597},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1332933008670807},{"id":"https://openalex.org/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","level":2,"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":"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":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","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":false},{"descriptor_ui":"D056004","descriptor_name":"Molecular Dynamics Simulation","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":false}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/bty021","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty021","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/10/1784/25118349/bty021.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:29340616","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/29340616","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":{"id":"doi:10.1093/bioinformatics/bty021","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty021","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/34/10/1784/25118349/bty021.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":[{"display_name":"Industry, innovation and infrastructure","id":"https://metadata.un.org/sdg/9","score":0.5799999833106995}],"awards":[{"id":"https://openalex.org/G215107753","display_name":null,"funder_award_id":"2017FI_B2_00168","funder_id":"https://openalex.org/F4320321505","funder_display_name":"Generalitat de Catalunya"},{"id":"https://openalex.org/G7639570177","display_name":null,"funder_award_id":"2014SGR989","funder_id":"https://openalex.org/F4320321505","funder_display_name":"Generalitat de Catalunya"}],"funders":[{"id":"https://openalex.org/F4320321505","display_name":"Generalitat de Catalunya","ror":"https://ror.org/01bg62x04"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2784287839.pdf","grobid_xml":"https://content.openalex.org/works/W2784287839.grobid-xml"},"referenced_works_count":10,"referenced_works":["https://openalex.org/W1526205344","https://openalex.org/W1976203248","https://openalex.org/W2061939373","https://openalex.org/W2069152576","https://openalex.org/W2132629607","https://openalex.org/W2134967712","https://openalex.org/W2146292423","https://openalex.org/W2147988069","https://openalex.org/W2627036743","https://openalex.org/W6631666057"],"related_works":["https://openalex.org/W4300438041","https://openalex.org/W2235766367","https://openalex.org/W1852679760","https://openalex.org/W2976477659","https://openalex.org/W2086733238","https://openalex.org/W4250110356","https://openalex.org/W2114326383","https://openalex.org/W1537913012","https://openalex.org/W212372412","https://openalex.org/W1982987887"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2025,"cited_by_count":2},{"year":2024,"cited_by_count":1},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":4},{"year":2020,"cited_by_count":8},{"year":2019,"cited_by_count":5}],"updated_date":"2026-04-17T18:11:37.981687","created_date":"2025-10-10T00:00:00"}
