{"id":"https://openalex.org/W4393394975","doi":"https://doi.org/10.1093/database/baae012","title":"ProNet DB: a proteome-wise database for protein surface property representations and RNA-binding profiles","display_name":"ProNet DB: a proteome-wise database for protein surface property representations and RNA-binding profiles","publication_year":2024,"publication_date":"2024-01-01","ids":{"openalex":"https://openalex.org/W4393394975","doi":"https://doi.org/10.1093/database/baae012","pmid":"https://pubmed.ncbi.nlm.nih.gov/38557634"},"language":"en","primary_location":{"id":"doi:10.1093/database/baae012","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baae012","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baae012/57135760/baae012.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baae012/57135760/baae012.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5001732938","display_name":"Junkang Wei","orcid":"https://orcid.org/0000-0001-5666-2140"},"institutions":[{"id":"https://openalex.org/I177725633","display_name":"Chinese University of Hong Kong","ror":"https://ror.org/00t33hh48","country_code":"HK","type":"education","lineage":["https://openalex.org/I177725633"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Junkang Wei","raw_affiliation_strings":["Department of Computer Science and Engineering (CSE), The Chinese University of Hong Kong (CUHK) , Chung Chi Rd, Ma Liu Shui, Hong Kong SAR 999077, China"],"raw_orcid":"https://orcid.org/0000-0001-5666-2140","affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering (CSE), The Chinese University of Hong Kong (CUHK) , Chung Chi Rd, Ma Liu Shui, Hong Kong SAR 999077, China","institution_ids":["https://openalex.org/I177725633"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5068860197","display_name":"Jin Xiao","orcid":"https://orcid.org/0000-0002-9369-6267"},"institutions":[{"id":"https://openalex.org/I177725633","display_name":"Chinese University of Hong Kong","ror":"https://ror.org/00t33hh48","country_code":"HK","type":"education","lineage":["https://openalex.org/I177725633"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Jin Xiao","raw_affiliation_strings":["Department of Computer Science and Engineering (CSE), The Chinese University of Hong Kong (CUHK) , Chung Chi Rd, Ma Liu Shui, Hong Kong SAR 999077, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering (CSE), The Chinese University of Hong Kong (CUHK) , Chung Chi Rd, Ma Liu Shui, Hong Kong SAR 999077, China","institution_ids":["https://openalex.org/I177725633"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074568118","display_name":"Siyuan Chen","orcid":"https://orcid.org/0000-0002-2382-2248"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":false,"raw_author_name":"Siyuan Chen","raw_affiliation_strings":["Computer Science Program, Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division, King Abdullah University of Science and Technology (KAUST) , Thuwal 23955, Kingdom of Saudi Arabia","KAUST Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology , Thuwal 23955, Kingdom of Saudi Arabia"],"raw_orcid":"https://orcid.org/0000-0002-2382-2248","affiliations":[{"raw_affiliation_string":"Computer Science Program, Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division, King Abdullah University of Science and Technology (KAUST) , Thuwal 23955, Kingdom of Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"KAUST Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology , Thuwal 23955, Kingdom of Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5087040829","display_name":"Licheng Zong","orcid":"https://orcid.org/0000-0001-5418-005X"},"institutions":[{"id":"https://openalex.org/I177725633","display_name":"Chinese University of Hong Kong","ror":"https://ror.org/00t33hh48","country_code":"HK","type":"education","lineage":["https://openalex.org/I177725633"]}],"countries":["HK"],"is_corresponding":false,"raw_author_name":"Licheng Zong","raw_affiliation_strings":["Department of Computer Science and Engineering (CSE), The Chinese University of Hong Kong (CUHK) , Chung Chi Rd, Ma Liu Shui, Hong Kong SAR 999077, China"],"raw_orcid":"https://orcid.org/0000-0001-5418-005X","affiliations":[{"raw_affiliation_string":"Department of Computer Science and Engineering (CSE), The Chinese University of Hong Kong (CUHK) , Chung Chi Rd, Ma Liu Shui, Hong Kong SAR 999077, China","institution_ids":["https://openalex.org/I177725633"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100618900","display_name":"Xin Gao","orcid":"https://orcid.org/0000-0002-7108-3574"},"institutions":[{"id":"https://openalex.org/I71920554","display_name":"King Abdullah University of Science and Technology","ror":"https://ror.org/01q3tbs38","country_code":"SA","type":"education","lineage":["https://openalex.org/I71920554"]}],"countries":["SA"],"is_corresponding":true,"raw_author_name":"Xin Gao","raw_affiliation_strings":["Computer Science Program, Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division, King Abdullah University of Science and Technology (KAUST) , Thuwal 23955, Kingdom of Saudi Arabia","KAUST Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology , Thuwal 23955, Kingdom of Saudi Arabia"],"raw_orcid":"https://orcid.org/0000-0002-7108-3574","affiliations":[{"raw_affiliation_string":"Computer Science Program, Computer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division, King Abdullah University of Science and Technology (KAUST) , Thuwal 23955, Kingdom of Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]},{"raw_affiliation_string":"KAUST Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology , Thuwal 23955, Kingdom of Saudi Arabia","institution_ids":["https://openalex.org/I71920554"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5100345753","display_name":"Yu Li","orcid":"https://orcid.org/0000-0002-3664-6722"},"institutions":[{"id":"https://openalex.org/I107606265","display_name":"Broad Institute","ror":"https://ror.org/05a0ya142","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I107606265"]},{"id":"https://openalex.org/I136199984","display_name":"Harvard University","ror":"https://ror.org/03vek6s52","country_code":"US","type":"education","lineage":["https://openalex.org/I136199984"]},{"id":"https://openalex.org/I177725633","display_name":"Chinese University of Hong Kong","ror":"https://ror.org/00t33hh48","country_code":"HK","type":"education","lineage":["https://openalex.org/I177725633"]},{"id":"https://openalex.org/I63966007","display_name":"Massachusetts Institute of Technology","ror":"https://ror.org/042nb2s44","country_code":"US","type":"education","lineage":["https://openalex.org/I63966007"]},{"id":"https://openalex.org/I889458895","display_name":"University of Hong Kong","ror":"https://ror.org/02zhqgq86","country_code":"HK","type":"education","lineage":["https://openalex.org/I889458895"]}],"countries":["HK","US"],"is_corresponding":true,"raw_author_name":"Yu Li","raw_affiliation_strings":["Broad Institute of MIT and Harvard, Merkin Building , 415 Main Street, Cambridge, MA 02142, USA","Department of Computer Science and Engineering (CSE), The Chinese University of Hong Kong (CUHK) , Chung Chi Rd, Ma Liu Shui, Hong Kong SAR 999077, China","Institute for Medical Engineering and Science, Massachusetts Institute of Technology , 45 Carleton Street, Cambridge, MA 02142, USA","The CUHK Shenzhen Research Institute , 4 Gaoxin Ave Nanshan, Shenzhen 518057, China","Wyss Institute for Biologically Inspired Engineering, Harvard University , 201 Brookline Avenue, Boston, MA 02215, USA"],"raw_orcid":"https://orcid.org/0000-0002-3664-6722","affiliations":[{"raw_affiliation_string":"Broad Institute of MIT and Harvard, Merkin Building , 415 Main Street, Cambridge, MA 02142, USA","institution_ids":["https://openalex.org/I107606265"]},{"raw_affiliation_string":"Department of Computer Science and Engineering (CSE), The Chinese University of Hong Kong (CUHK) , Chung Chi Rd, Ma Liu Shui, Hong Kong SAR 999077, China","institution_ids":["https://openalex.org/I177725633"]},{"raw_affiliation_string":"Institute for Medical Engineering and Science, Massachusetts Institute of Technology , 45 Carleton Street, Cambridge, MA 02142, USA","institution_ids":["https://openalex.org/I63966007"]},{"raw_affiliation_string":"The CUHK Shenzhen Research Institute , 4 Gaoxin Ave Nanshan, Shenzhen 518057, China","institution_ids":["https://openalex.org/I889458895"]},{"raw_affiliation_string":"Wyss Institute for Biologically Inspired Engineering, Harvard University , 201 Brookline Avenue, Boston, MA 02215, USA","institution_ids":["https://openalex.org/I136199984"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5100345753","https://openalex.org/A5100618900"],"corresponding_institution_ids":["https://openalex.org/I107606265","https://openalex.org/I136199984","https://openalex.org/I177725633","https://openalex.org/I63966007","https://openalex.org/I71920554","https://openalex.org/I889458895"],"apc_list":{"value":1415,"currency":"GBP","value_usd":1735},"apc_paid":{"value":1415,"currency":"GBP","value_usd":1735},"fwci":0.3241,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.53627302,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":95,"max":96},"biblio":{"volume":"2024","issue":null,"first_page":null,"last_page":null},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10044","display_name":"Protein Structure and Dynamics","score":0.9983999729156494,"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":0.9983999729156494,"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/T10932","display_name":"Microbial Metabolic Engineering and Bioproduction","score":0.9970999956130981,"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":0.9962000250816345,"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"}}],"keywords":[{"id":"https://openalex.org/keywords/proteome","display_name":"Proteome","score":0.7390199899673462},{"id":"https://openalex.org/keywords/representation","display_name":"Representation (politics)","score":0.6576850414276123},{"id":"https://openalex.org/keywords/property","display_name":"Property (philosophy)","score":0.6041852235794067},{"id":"https://openalex.org/keywords/protein-data-bank","display_name":"Protein Data Bank","score":0.5794348120689392},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5570117235183716},{"id":"https://openalex.org/keywords/rna","display_name":"RNA","score":0.5208028554916382},{"id":"https://openalex.org/keywords/database","display_name":"Database","score":0.49657779932022095},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.463226318359375},{"id":"https://openalex.org/keywords/protein-structure-database","display_name":"Protein structure database","score":0.444783091545105},{"id":"https://openalex.org/keywords/protein-structure","display_name":"Protein structure","score":0.37502291798591614},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.2889387011528015},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.27748924493789673},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.27674973011016846},{"id":"https://openalex.org/keywords/sequence-database","display_name":"Sequence database","score":0.1172633171081543},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.10105466842651367}],"concepts":[{"id":"https://openalex.org/C104397665","wikidata":"https://www.wikidata.org/wiki/Q860947","display_name":"Proteome","level":2,"score":0.7390199899673462},{"id":"https://openalex.org/C2776359362","wikidata":"https://www.wikidata.org/wiki/Q2145286","display_name":"Representation (politics)","level":3,"score":0.6576850414276123},{"id":"https://openalex.org/C189950617","wikidata":"https://www.wikidata.org/wiki/Q937228","display_name":"Property (philosophy)","level":2,"score":0.6041852235794067},{"id":"https://openalex.org/C119145174","wikidata":"https://www.wikidata.org/wiki/Q7251429","display_name":"Protein Data Bank","level":3,"score":0.5794348120689392},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5570117235183716},{"id":"https://openalex.org/C67705224","wikidata":"https://www.wikidata.org/wiki/Q11053","display_name":"RNA","level":3,"score":0.5208028554916382},{"id":"https://openalex.org/C77088390","wikidata":"https://www.wikidata.org/wiki/Q8513","display_name":"Database","level":1,"score":0.49657779932022095},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.463226318359375},{"id":"https://openalex.org/C136475424","wikidata":"https://www.wikidata.org/wiki/Q7251500","display_name":"Protein structure database","level":4,"score":0.444783091545105},{"id":"https://openalex.org/C47701112","wikidata":"https://www.wikidata.org/wiki/Q735188","display_name":"Protein structure","level":2,"score":0.37502291798591614},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.2889387011528015},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.27748924493789673},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.27674973011016846},{"id":"https://openalex.org/C41584329","wikidata":"https://www.wikidata.org/wiki/Q175902","display_name":"Sequence database","level":3,"score":0.1172633171081543},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.10105466842651367},{"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/C104317684","wikidata":"https://www.wikidata.org/wiki/Q7187","display_name":"Gene","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/C138885662","wikidata":"https://www.wikidata.org/wiki/Q5891","display_name":"Philosophy","level":0,"score":0.0},{"id":"https://openalex.org/C111472728","wikidata":"https://www.wikidata.org/wiki/Q9471","display_name":"Epistemology","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":"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":"D001665","descriptor_name":"Binding Sites","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D012313","descriptor_name":"RNA","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":true},{"descriptor_ui":"D013499","descriptor_name":"Surface Properties","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013499","descriptor_name":"Surface Properties","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013499","descriptor_name":"Surface Properties","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D013499","descriptor_name":"Surface Properties","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D020543","descriptor_name":"Proteome","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"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},{"descriptor_ui":"D030562","descriptor_name":"Databases, Protein","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":3,"locations":[{"id":"doi:10.1093/database/baae012","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baae012","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baae012/57135760/baae012.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},{"id":"pmid:38557634","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/38557634","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":"Database : the journal of biological databases and curation","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:10984565","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/10984565","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":"Database (Oxford)","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/database/baae012","is_oa":true,"landing_page_url":"https://doi.org/10.1093/database/baae012","pdf_url":"https://academic.oup.com/database/article-pdf/doi/10.1093/database/baae012/57135760/baae012.pdf","source":{"id":"https://openalex.org/S4210201630","display_name":"Database","issn_l":"1758-0463","issn":["1758-0463"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310311647","host_organization_name":"University of Oxford","host_organization_lineage":["https://openalex.org/P4310311647"],"host_organization_lineage_names":["University of Oxford"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Database","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[{"id":"https://openalex.org/F4320322942","display_name":"Chinese University of Hong Kong","ror":"https://ror.org/00t33hh48"}],"has_content":{"pdf":true,"grobid_xml":false},"content_urls":{"pdf":"https://content.openalex.org/works/W4393394975.pdf"},"referenced_works_count":26,"referenced_works":["https://openalex.org/W1019830208","https://openalex.org/W1985550715","https://openalex.org/W2070318172","https://openalex.org/W2101888232","https://openalex.org/W2107959600","https://openalex.org/W2142515819","https://openalex.org/W2159324718","https://openalex.org/W2252568502","https://openalex.org/W2496542349","https://openalex.org/W2620998958","https://openalex.org/W2892586379","https://openalex.org/W2965050052","https://openalex.org/W2982552606","https://openalex.org/W2992752586","https://openalex.org/W3042423188","https://openalex.org/W3087769169","https://openalex.org/W3100159300","https://openalex.org/W3106930452","https://openalex.org/W3130942878","https://openalex.org/W3138228681","https://openalex.org/W3160021293","https://openalex.org/W3179205247","https://openalex.org/W3184615727","https://openalex.org/W3211795435","https://openalex.org/W4367049161","https://openalex.org/W6783908415"],"related_works":["https://openalex.org/W2121688928","https://openalex.org/W1495233806","https://openalex.org/W2185518315","https://openalex.org/W2181530468","https://openalex.org/W2593264178","https://openalex.org/W2740391153","https://openalex.org/W2000589311","https://openalex.org/W2084743099","https://openalex.org/W2058810039","https://openalex.org/W2607853144"],"abstract_inverted_index":{"The":[0,191],"rapid":[1],"growth":[2],"in":[3,24,53,206],"the":[4,38,68,92,98,108,120,126,146,163,180,217],"number":[5],"of":[6,31,41,159,185,193,219],"experimental":[7],"and":[8,12,28,44,63,81,103,135,149,152,162,173,183,216],"predicted":[9],"protein":[10,15,32,45,78,87,122,189],"structures":[11,16,106,123],"more":[13],"complicated":[14],"poses":[17],"a":[18,50],"significant":[19],"challenge":[20],"for":[21,84,179,199],"computational":[22,203],"biology":[23,204],"leveraging":[25],"structural":[26],"information":[27],"accurate":[29],"representation":[30,48],"surface":[33,46,79,128],"properties.":[34],"Recently,":[35],"AlphaFold2":[36],"released":[37],"comprehensive":[39],"proteomes":[40,96],"various":[42],"species,":[43],"property":[47,129],"plays":[49],"crucial":[51],"role":[52],"protein-molecule":[54],"interaction":[55],"predictions,":[56],"including":[57],"those":[58],"involving":[59],"proteins,":[60],"nucleic":[61],"acids":[62],"compounds.":[64],"Here,":[65],"we":[66],"proposed":[67],"first":[69],"extensive":[70],"database,":[71],"namely":[72],"ProNet":[73,115,166],"DB,":[74],"that":[75],"integrates":[76],"multiple":[77],"representations":[80,130,187],"RNA-binding":[82,150,164],"landscape":[83],"326":[85],"175":[86],"structures.":[88],"This":[89],"collection":[90],"encompasses":[91],"16":[93],"model":[94],"organism":[95],"from":[97,107],"AlphaFold":[99],"Protein":[100,109],"Structure":[101],"Database":[102,223],"experimentally":[104],"validated":[105],"Data":[110],"Bank.":[111],"For":[112],"each":[113],"protein,":[114],"DB":[116,167],"provides":[117],"access":[118,198],"to":[119],"original":[121],"along":[124],"with":[125],"detailed":[127],"encompassing":[131],"hydrophobicity,":[132],"charge":[133],"distribution":[134],"hydrogen":[136],"bonding":[137],"potential":[138],"as":[139,141,145,209],"well":[140],"interactive":[142],"features":[143,195],"such":[144,208],"interacting":[147],"face":[148],"sites":[151],"preferences.":[153],"To":[154],"facilitate":[155],"an":[156,174],"intuitive":[157],"interpretation":[158],"these":[160,186],"properties":[161],"landscape,":[165],"incorporates":[168],"visualization":[169],"tools":[170],"like":[171],"Mol*":[172],"Online":[175],"3D":[176],"Viewer,":[177],"allowing":[178],"direct":[181],"observation":[182],"analysis":[184],"on":[188],"surfaces.":[190],"availability":[192],"pre-computed":[194],"enables":[196],"instantaneous":[197],"users,":[200],"significantly":[201],"advancing":[202],"research":[205],"areas":[207],"molecular":[210],"mechanism":[211],"elucidation,":[212],"geometry-based":[213],"drug":[214],"discovery":[215],"development":[218],"novel":[220],"therapeutic":[221],"approaches.":[222],"URL:":[224],"https://proj.cse.cuhk.edu.hk/aihlab/pronet/.":[225]},"counts_by_year":[{"year":2025,"cited_by_count":2}],"updated_date":"2026-07-29T09:40:50.615796","created_date":"2025-10-10T00:00:00"}
