{"id":"https://openalex.org/W2910033432","doi":"https://doi.org/10.1093/bioinformatics/bty1038","title":"PyLink: a PyMOL plugin to identify links","display_name":"PyLink: a PyMOL plugin to identify links","publication_year":2018,"publication_date":"2018-12-22","ids":{"openalex":"https://openalex.org/W2910033432","doi":"https://doi.org/10.1093/bioinformatics/bty1038","mag":"2910033432","pmid":"https://pubmed.ncbi.nlm.nih.gov/30649182"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/bty1038","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty1038","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/A5020427198","display_name":"Aleksandra M Gierut","orcid":null},"institutions":[{"id":"https://openalex.org/I126596746","display_name":"Jagiellonian University","ror":"https://ror.org/03bqmcz70","country_code":"PL","type":"education","lineage":["https://openalex.org/I126596746"]},{"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":"Aleksandra M Gierut","raw_affiliation_strings":["Astronomy and Applied Computer Science, Jagiellonian University Faculty of Physics, , Cracow, Poland","Centre of New Technologies, University of Warsaw , Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Astronomy and Applied Computer Science, Jagiellonian University Faculty of Physics, , Cracow, Poland","institution_ids":["https://openalex.org/I126596746"]},{"raw_affiliation_string":"Centre of New Technologies, University of Warsaw , Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5040654786","display_name":"Pawe\u0142 D\u0105browski-Tuma\u0144ski","orcid":"https://orcid.org/0000-0001-9412-1716"},"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":"Pawel Dabrowski-Tumanski","raw_affiliation_strings":["Centre of New Technologies, University of Warsaw , Warsaw, Poland","University of Warsaw Faculty of Chemistry, , Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Centre of New Technologies, University of Warsaw , Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]},{"raw_affiliation_string":"University of Warsaw Faculty of Chemistry, , Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5058049197","display_name":"Wanda Niemyska","orcid":"https://orcid.org/0000-0003-4167-1807"},"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":"Wanda Niemyska","raw_affiliation_strings":["Centre of New Technologies, University of Warsaw , Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Centre of New Technologies, University of Warsaw , Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5039953634","display_name":"Kenneth C. Millett","orcid":"https://orcid.org/0000-0002-7667-4912"},"institutions":[{"id":"https://openalex.org/I154570441","display_name":"University of California, Santa Barbara","ror":"https://ror.org/02t274463","country_code":"US","type":"education","lineage":["https://openalex.org/I154570441"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Kenneth C Millett","raw_affiliation_strings":["Department of Mathematics, University of California , Santa Barbara, CA, USA"],"affiliations":[{"raw_affiliation_string":"Department of Mathematics, University of California , Santa Barbara, CA, USA","institution_ids":["https://openalex.org/I154570441"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5013867366","display_name":"Joanna I. Su\u0142kowska","orcid":"https://orcid.org/0000-0003-2452-0724"},"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":"Joanna I Sulkowska","raw_affiliation_strings":["Centre of New Technologies, University of Warsaw , Warsaw, Poland","University of Warsaw Faculty of Chemistry, , Warsaw, Poland"],"affiliations":[{"raw_affiliation_string":"Centre of New Technologies, University of Warsaw , Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]},{"raw_affiliation_string":"University of Warsaw Faculty of Chemistry, , Warsaw, Poland","institution_ids":["https://openalex.org/I4654613"]}]}],"institutions":[],"countries_distinct_count":2,"institutions_distinct_count":5,"corresponding_author_ids":["https://openalex.org/A5013867366"],"corresponding_institution_ids":["https://openalex.org/I4654613"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":1.0196,"has_fulltext":false,"cited_by_count":16,"citation_normalized_percentile":{"value":0.76694488,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":89,"max":99},"biblio":{"volume":"35","issue":"17","first_page":"3166","last_page":"3168"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T13326","display_name":"Biochemical and Structural Characterization","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/T13326","display_name":"Biochemical and Structural Characterization","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/T10602","display_name":"Glycosylation and Glycoproteins Research","score":0.9732999801635742,"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/T10911","display_name":"Chemical Synthesis and Analysis","score":0.9524000287055969,"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/plug-in","display_name":"Plug-in","score":0.8805182576179504},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6570348739624023},{"id":"https://openalex.org/keywords/template","display_name":"Template","score":0.6566750407218933},{"id":"https://openalex.org/keywords/task","display_name":"Task (project management)","score":0.5342909693717957},{"id":"https://openalex.org/keywords/generalization","display_name":"Generalization","score":0.4910881519317627},{"id":"https://openalex.org/keywords/disulfide-bond","display_name":"Disulfide bond","score":0.45206746459007263},{"id":"https://openalex.org/keywords/topology","display_name":"Topology (electrical circuits)","score":0.4334249496459961},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.3440817594528198},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.2717817425727844},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.24938762187957764},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.15484121441841125},{"id":"https://openalex.org/keywords/mathematics","display_name":"Mathematics","score":0.13792556524276733},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.1113763153553009},{"id":"https://openalex.org/keywords/engineering","display_name":"Engineering","score":0.08567219972610474}],"concepts":[{"id":"https://openalex.org/C4924752","wikidata":"https://www.wikidata.org/wiki/Q184148","display_name":"Plug-in","level":2,"score":0.8805182576179504},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6570348739624023},{"id":"https://openalex.org/C82714645","wikidata":"https://www.wikidata.org/wiki/Q438331","display_name":"Template","level":2,"score":0.6566750407218933},{"id":"https://openalex.org/C2780451532","wikidata":"https://www.wikidata.org/wiki/Q759676","display_name":"Task (project management)","level":2,"score":0.5342909693717957},{"id":"https://openalex.org/C177148314","wikidata":"https://www.wikidata.org/wiki/Q170084","display_name":"Generalization","level":2,"score":0.4910881519317627},{"id":"https://openalex.org/C27256138","wikidata":"https://www.wikidata.org/wiki/Q1230226","display_name":"Disulfide bond","level":2,"score":0.45206746459007263},{"id":"https://openalex.org/C184720557","wikidata":"https://www.wikidata.org/wiki/Q7825049","display_name":"Topology (electrical circuits)","level":2,"score":0.4334249496459961},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3440817594528198},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.2717817425727844},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.24938762187957764},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.15484121441841125},{"id":"https://openalex.org/C33923547","wikidata":"https://www.wikidata.org/wiki/Q395","display_name":"Mathematics","level":0,"score":0.13792556524276733},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.1113763153553009},{"id":"https://openalex.org/C127413603","wikidata":"https://www.wikidata.org/wiki/Q11023","display_name":"Engineering","level":0,"score":0.08567219972610474},{"id":"https://openalex.org/C201995342","wikidata":"https://www.wikidata.org/wiki/Q682496","display_name":"Systems engineering","level":1,"score":0.0},{"id":"https://openalex.org/C114614502","wikidata":"https://www.wikidata.org/wiki/Q76592","display_name":"Combinatorics","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}],"mesh":[{"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}],"locations_count":2,"locations":[{"id":"doi:10.1093/bioinformatics/bty1038","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/bty1038","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:30649182","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/30649182","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/G6238800115","display_name":null,"funder_award_id":"#2016/21/N/NZ1/02848","funder_id":"https://openalex.org/F4320322511","funder_display_name":"Narodowe Centrum Nauki"}],"funders":[{"id":"https://openalex.org/F4320322511","display_name":"Narodowe Centrum Nauki","ror":"https://ror.org/03ha2q922"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":14,"referenced_works":["https://openalex.org/W34488862","https://openalex.org/W1974256783","https://openalex.org/W1995390287","https://openalex.org/W2015191244","https://openalex.org/W2027956799","https://openalex.org/W2133301041","https://openalex.org/W2463335714","https://openalex.org/W2543748880","https://openalex.org/W2594458869","https://openalex.org/W2625953683","https://openalex.org/W2745769213","https://openalex.org/W3099658193","https://openalex.org/W3105054908","https://openalex.org/W6601402741"],"related_works":["https://openalex.org/W4287378204","https://openalex.org/W2981957539","https://openalex.org/W47352601","https://openalex.org/W2545422590","https://openalex.org/W4240705470","https://openalex.org/W2945311252","https://openalex.org/W631546281","https://openalex.org/W4213354039","https://openalex.org/W2266220644","https://openalex.org/W4233372795"],"abstract_inverted_index":{"The":[0],"PyLink":[1],"plugin,":[2],"manual":[3],"and":[4],"tutorial":[5],"videos":[6],"are":[7],"available":[8],"at":[9],"http://pylink.cent.uw.edu.pl.":[10]},"counts_by_year":[{"year":2025,"cited_by_count":3},{"year":2024,"cited_by_count":1},{"year":2022,"cited_by_count":1},{"year":2021,"cited_by_count":2},{"year":2020,"cited_by_count":7},{"year":2018,"cited_by_count":2}],"updated_date":"2026-03-12T08:34:05.389933","created_date":"2025-10-10T00:00:00"}
