{"id":"https://openalex.org/W4404636620","doi":"https://doi.org/10.1007/s11704-024-31060-3","title":"Expanding the sequence spaces of synthetic binding protein using deep learning-based framework ProteinMPNN","display_name":"Expanding the sequence spaces of synthetic binding protein using deep learning-based framework ProteinMPNN","publication_year":2024,"publication_date":"2024-11-22","ids":{"openalex":"https://openalex.org/W4404636620","doi":"https://doi.org/10.1007/s11704-024-31060-3"},"language":"en","primary_location":{"id":"doi:10.1007/s11704-024-31060-3","is_oa":false,"landing_page_url":"https://doi.org/10.1007/s11704-024-31060-3","pdf_url":null,"source":{"id":"https://openalex.org/S4210231404","display_name":"Frontiers of Computer Science","issn_l":"2095-2228","issn":["2095-2228","2095-2236"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311889","host_organization_name":"Higher Education Press","host_organization_lineage":["https://openalex.org/P4310311889"],"host_organization_lineage_names":["Higher Education Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers of Computer Science","raw_type":"journal-article"},"type":"article","indexed_in":["crossref"],"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/A5100376053","display_name":"Yanlin Li","orcid":"https://orcid.org/0000-0002-8418-0699"},"institutions":[{"id":"https://openalex.org/I158842170","display_name":"Chongqing University","ror":"https://ror.org/023rhb549","country_code":"CN","type":"education","lineage":["https://openalex.org/I158842170"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Yanlin Li","raw_affiliation_strings":["Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, Chongqing University, Chongqing, 401331, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, Chongqing University, Chongqing, 401331, China","institution_ids":["https://openalex.org/I158842170"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5113767917","display_name":"Wenzhe Jiao","orcid":null},"institutions":[{"id":"https://openalex.org/I158842170","display_name":"Chongqing University","ror":"https://ror.org/023rhb549","country_code":"CN","type":"education","lineage":["https://openalex.org/I158842170"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Wantong Jiao","raw_affiliation_strings":["Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, Chongqing University, Chongqing, 401331, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, Chongqing University, Chongqing, 401331, China","institution_ids":["https://openalex.org/I158842170"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5026139720","display_name":"Ruihan Liu","orcid":"https://orcid.org/0000-0002-3512-9627"},"institutions":[{"id":"https://openalex.org/I158842170","display_name":"Chongqing University","ror":"https://ror.org/023rhb549","country_code":"CN","type":"education","lineage":["https://openalex.org/I158842170"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Ruihan Liu","raw_affiliation_strings":["Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, Chongqing University, Chongqing, 401331, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, Chongqing University, Chongqing, 401331, China","institution_ids":["https://openalex.org/I158842170"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5109791201","display_name":"Xuejin Deng","orcid":null},"institutions":[{"id":"https://openalex.org/I158842170","display_name":"Chongqing University","ror":"https://ror.org/023rhb549","country_code":"CN","type":"education","lineage":["https://openalex.org/I158842170"]}],"countries":["CN"],"is_corresponding":false,"raw_author_name":"Xuejin Deng","raw_affiliation_strings":["Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, Chongqing University, Chongqing, 401331, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, Chongqing University, Chongqing, 401331, China","institution_ids":["https://openalex.org/I158842170"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5100755257","display_name":"Feng Zhu","orcid":"https://orcid.org/0000-0001-8069-0053"},"institutions":[{"id":"https://openalex.org/I76130692","display_name":"Zhejiang University","ror":"https://ror.org/00a2xv884","country_code":"CN","type":"education","lineage":["https://openalex.org/I76130692"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Feng Zhu","raw_affiliation_strings":["College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, 310058, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"College of Pharmaceutical Sciences, Zhejiang University, Hangzhou, 310058, China","institution_ids":["https://openalex.org/I76130692"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5027345342","display_name":"Weiwei Xue","orcid":"https://orcid.org/0000-0002-3285-0574"},"institutions":[{"id":"https://openalex.org/I158842170","display_name":"Chongqing University","ror":"https://ror.org/023rhb549","country_code":"CN","type":"education","lineage":["https://openalex.org/I158842170"]}],"countries":["CN"],"is_corresponding":true,"raw_author_name":"Weiwei Xue","raw_affiliation_strings":["Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, Chongqing University, Chongqing, 401331, China"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Chongqing Key Laboratory of Natural Product Synthesis and Drug Research, School of Pharmaceutical Sciences, Chongqing University, Chongqing, 401331, China","institution_ids":["https://openalex.org/I158842170"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5027345342","https://openalex.org/A5100755257"],"corresponding_institution_ids":["https://openalex.org/I158842170","https://openalex.org/I76130692"],"apc_list":{"value":2290,"currency":"EUR","value_usd":2890},"apc_paid":null,"fwci":0.4063,"has_fulltext":false,"cited_by_count":2,"citation_normalized_percentile":{"value":0.64047701,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":95},"biblio":{"volume":"19","issue":"5","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":0.9991999864578247,"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":0.9991999864578247,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.9986000061035156,"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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9941999912261963,"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/computer-science","display_name":"Computer science","score":0.8479577302932739},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.6010777950286865},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.573489248752594},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.48321712017059326},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.06994572281837463},{"id":"https://openalex.org/keywords/genetics","display_name":"Genetics","score":0.05130001902580261}],"concepts":[{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.8479577302932739},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.6010777950286865},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.573489248752594},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.48321712017059326},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.06994572281837463},{"id":"https://openalex.org/C54355233","wikidata":"https://www.wikidata.org/wiki/Q7162","display_name":"Genetics","level":1,"score":0.05130001902580261}],"mesh":[],"locations_count":1,"locations":[{"id":"doi:10.1007/s11704-024-31060-3","is_oa":false,"landing_page_url":"https://doi.org/10.1007/s11704-024-31060-3","pdf_url":null,"source":{"id":"https://openalex.org/S4210231404","display_name":"Frontiers of Computer Science","issn_l":"2095-2228","issn":["2095-2228","2095-2236"],"is_oa":false,"is_in_doaj":false,"is_core":true,"host_organization":"https://openalex.org/P4310311889","host_organization_name":"Higher Education Press","host_organization_lineage":["https://openalex.org/P4310311889"],"host_organization_lineage_names":["Higher Education Press"],"type":"journal"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers of Computer Science","raw_type":"journal-article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":58,"referenced_works":["https://openalex.org/W1969900252","https://openalex.org/W1980947093","https://openalex.org/W1994510302","https://openalex.org/W2001324434","https://openalex.org/W2015214828","https://openalex.org/W2026854113","https://openalex.org/W2033447440","https://openalex.org/W2035503835","https://openalex.org/W2055043387","https://openalex.org/W2073272324","https://openalex.org/W2080187647","https://openalex.org/W2086779432","https://openalex.org/W2111139854","https://openalex.org/W2112695987","https://openalex.org/W2116572072","https://openalex.org/W2119246926","https://openalex.org/W2135815512","https://openalex.org/W2151470860","https://openalex.org/W2171533950","https://openalex.org/W2226390547","https://openalex.org/W2464205539","https://openalex.org/W2519539312","https://openalex.org/W2620185010","https://openalex.org/W2793209087","https://openalex.org/W2893956305","https://openalex.org/W2910860766","https://openalex.org/W2911475376","https://openalex.org/W2950954328","https://openalex.org/W2957625277","https://openalex.org/W2968494487","https://openalex.org/W2999754980","https://openalex.org/W3036319615","https://openalex.org/W3047233668","https://openalex.org/W3088578860","https://openalex.org/W3136516085","https://openalex.org/W3153214143","https://openalex.org/W3177828909","https://openalex.org/W3207520855","https://openalex.org/W3212854871","https://openalex.org/W3216341763","https://openalex.org/W4205773061","https://openalex.org/W4210452324","https://openalex.org/W4214937996","https://openalex.org/W4220765272","https://openalex.org/W4224117196","https://openalex.org/W4244736178","https://openalex.org/W4282924213","https://openalex.org/W4285392187","https://openalex.org/W4289653737","https://openalex.org/W4296032638","https://openalex.org/W4307975759","https://openalex.org/W4309908854","https://openalex.org/W4312932619","https://openalex.org/W4321480048","https://openalex.org/W4375856225","https://openalex.org/W4380792447","https://openalex.org/W4388696172","https://openalex.org/W4390393445"],"related_works":["https://openalex.org/W2731899572","https://openalex.org/W3215138031","https://openalex.org/W3009238340","https://openalex.org/W4360585206","https://openalex.org/W4321369474","https://openalex.org/W4285208911","https://openalex.org/W3082895349","https://openalex.org/W4213079790","https://openalex.org/W2248239756","https://openalex.org/W4323565446"],"abstract_inverted_index":null,"counts_by_year":[{"year":2025,"cited_by_count":1},{"year":2024,"cited_by_count":1}],"updated_date":"2026-06-13T06:13:01.061226","created_date":"2025-10-10T00:00:00"}
