{"id":"https://openalex.org/W3093397714","doi":"https://doi.org/10.1093/bioinformatics/btaa858","title":"MDeePred: novel multi-channel protein featurization for deep learning-based binding affinity prediction in drug discovery","display_name":"MDeePred: novel multi-channel protein featurization for deep learning-based binding affinity prediction in drug discovery","publication_year":2020,"publication_date":"2020-10-06","ids":{"openalex":"https://openalex.org/W3093397714","doi":"https://doi.org/10.1093/bioinformatics/btaa858","mag":"3093397714","pmid":"https://pubmed.ncbi.nlm.nih.gov/33067636"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btaa858","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa858","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/A5082878067","display_name":"Ahmet S\u00fcreyya Rifaio\u011flu","orcid":"https://orcid.org/0000-0001-6717-4767"},"institutions":[{"id":"https://openalex.org/I201799495","display_name":"Middle East Technical University","ror":"https://ror.org/014weej12","country_code":"TR","type":"education","lineage":["https://openalex.org/I201799495"]},{"id":"https://openalex.org/I4210155859","display_name":"\u0130skenderun Technical University","ror":"https://ror.org/052nzqz14","country_code":"TR","type":"education","lineage":["https://openalex.org/I4210155859"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"A S Rifaioglu","raw_affiliation_strings":["Department of Computer Engineering, Middle East Technical University , Ankara, Turkey","Department of Computer Engineering, \u0130skenderun Technical University , Hatay, Turkey"],"affiliations":[{"raw_affiliation_string":"Department of Computer Engineering, Middle East Technical University , Ankara, Turkey","institution_ids":["https://openalex.org/I201799495"]},{"raw_affiliation_string":"Department of Computer Engineering, \u0130skenderun Technical University , Hatay, Turkey","institution_ids":["https://openalex.org/I4210155859"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037440533","display_name":"Reng\u00fcl \u00c7etin-Atalay","orcid":"https://orcid.org/0000-0003-2408-6606"},"institutions":[{"id":"https://openalex.org/I201799495","display_name":"Middle East Technical University","ror":"https://ror.org/014weej12","country_code":"TR","type":"education","lineage":["https://openalex.org/I201799495"]},{"id":"https://openalex.org/I40347166","display_name":"University of Chicago","ror":"https://ror.org/024mw5h28","country_code":"US","type":"education","lineage":["https://openalex.org/I40347166"]}],"countries":["TR","US"],"is_corresponding":false,"raw_author_name":"R Cetin Atalay","raw_affiliation_strings":["Graduate School of Informatics, Middle East Technical University , Ankara, Turkey","Section of Pulmonary and Critical Care Medicine, The University of Chicago , Chicago, IL, USA"],"affiliations":[{"raw_affiliation_string":"Graduate School of Informatics, Middle East Technical University , Ankara, Turkey","institution_ids":["https://openalex.org/I201799495"]},{"raw_affiliation_string":"Section of Pulmonary and Critical Care Medicine, The University of Chicago , Chicago, IL, USA","institution_ids":["https://openalex.org/I40347166"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5016293166","display_name":"Deniz Kahraman","orcid":"https://orcid.org/0000-0002-3381-5463"},"institutions":[{"id":"https://openalex.org/I201799495","display_name":"Middle East Technical University","ror":"https://ror.org/014weej12","country_code":"TR","type":"education","lineage":["https://openalex.org/I201799495"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"D Cansen Kahraman","raw_affiliation_strings":["Graduate School of Informatics, Middle East Technical University , Ankara, Turkey"],"affiliations":[{"raw_affiliation_string":"Graduate School of Informatics, Middle East Technical University , Ankara, Turkey","institution_ids":["https://openalex.org/I201799495"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5003981652","display_name":"Tunca Do\u011fan","orcid":"https://orcid.org/0000-0002-1298-9763"},"institutions":[{"id":"https://openalex.org/I66514158","display_name":"Hacettepe University","ror":"https://ror.org/04kwvgz42","country_code":"TR","type":"education","lineage":["https://openalex.org/I66514158"]}],"countries":["TR"],"is_corresponding":false,"raw_author_name":"T Do\u011fan","raw_affiliation_strings":["Department of Computer Engineering, Hacettepe University , Ankara, Turkey","Institute of Informatics, Hacettepe University , Ankara, Turkey"],"affiliations":[{"raw_affiliation_string":"Department of Computer Engineering, Hacettepe University , Ankara, Turkey","institution_ids":["https://openalex.org/I66514158"]},{"raw_affiliation_string":"Institute of Informatics, Hacettepe University , Ankara, Turkey","institution_ids":["https://openalex.org/I66514158"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5071535801","display_name":"Mar\u00eda Martin","orcid":"https://orcid.org/0000-0001-5454-2815"},"institutions":[{"id":"https://openalex.org/I1303153112","display_name":"European Bioinformatics Institute","ror":"https://ror.org/02catss52","country_code":"GB","type":"facility","lineage":["https://openalex.org/I1303153112","https://openalex.org/I4210138560"]}],"countries":["GB"],"is_corresponding":false,"raw_author_name":"M Martin","raw_affiliation_strings":["European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL\u2013EBI) , Cambridge, Hinxton, UK"],"affiliations":[{"raw_affiliation_string":"European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL\u2013EBI) , Cambridge, Hinxton, UK","institution_ids":["https://openalex.org/I1303153112"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5042515589","display_name":"Volkan Atalay","orcid":"https://orcid.org/0000-0001-7850-0601"},"institutions":[{"id":"https://openalex.org/I201799495","display_name":"Middle East Technical University","ror":"https://ror.org/014weej12","country_code":"TR","type":"education","lineage":["https://openalex.org/I201799495"]}],"countries":["TR"],"is_corresponding":true,"raw_author_name":"V Atalay","raw_affiliation_strings":["Department of Computer Engineering, Middle East Technical University , Ankara, Turkey"],"affiliations":[{"raw_affiliation_string":"Department of Computer Engineering, Middle East Technical University , Ankara, Turkey","institution_ids":["https://openalex.org/I201799495"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5042515589"],"corresponding_institution_ids":["https://openalex.org/I201799495"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":5.423,"has_fulltext":false,"cited_by_count":120,"citation_normalized_percentile":{"value":0.96941424,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":89,"max":100},"biblio":{"volume":"37","issue":"5","first_page":"693","last_page":"704"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.998199999332428,"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/T12254","display_name":"Machine Learning in Bioinformatics","score":0.998199999332428,"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":0.9969000220298767,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9954000115394592,"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/drug-discovery","display_name":"Drug discovery","score":0.7392657995223999},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.6357408761978149},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.5454942584037781},{"id":"https://openalex.org/keywords/deep-learning","display_name":"Deep learning","score":0.490446537733078},{"id":"https://openalex.org/keywords/channel","display_name":"Channel (broadcasting)","score":0.4849095940589905},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.44634953141212463},{"id":"https://openalex.org/keywords/computational-biology","display_name":"Computational biology","score":0.402910977602005},{"id":"https://openalex.org/keywords/bioinformatics","display_name":"Bioinformatics","score":0.21312963962554932},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.1326686441898346},{"id":"https://openalex.org/keywords/computer-network","display_name":"Computer network","score":0.06693777441978455}],"concepts":[{"id":"https://openalex.org/C74187038","wikidata":"https://www.wikidata.org/wiki/Q1418791","display_name":"Drug discovery","level":2,"score":0.7392657995223999},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.6357408761978149},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.5454942584037781},{"id":"https://openalex.org/C108583219","wikidata":"https://www.wikidata.org/wiki/Q197536","display_name":"Deep learning","level":2,"score":0.490446537733078},{"id":"https://openalex.org/C127162648","wikidata":"https://www.wikidata.org/wiki/Q16858953","display_name":"Channel (broadcasting)","level":2,"score":0.4849095940589905},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.44634953141212463},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.402910977602005},{"id":"https://openalex.org/C60644358","wikidata":"https://www.wikidata.org/wiki/Q128570","display_name":"Bioinformatics","level":1,"score":0.21312963962554932},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.1326686441898346},{"id":"https://openalex.org/C31258907","wikidata":"https://www.wikidata.org/wiki/Q1301371","display_name":"Computer network","level":1,"score":0.06693777441978455}],"mesh":[{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D000077321","descriptor_name":"Deep Learning","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","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":"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":false},{"descriptor_ui":"D012984","descriptor_name":"Software","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":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D016571","descriptor_name":"Neural Networks, Computer","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D055808","descriptor_name":"Drug Discovery","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true}],"locations_count":3,"locations":[{"id":"doi:10.1093/bioinformatics/btaa858","is_oa":false,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btaa858","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:33067636","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/33067636","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},{"id":"pmh:oai:https://open.metu.edu.tr:11511/90855","is_oa":false,"landing_page_url":"https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=85106439163&origin=inward","pdf_url":null,"source":{"id":"https://openalex.org/S4306402495","display_name":"OpenMETU (Middle East Technical University)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I201799495","host_organization_name":"Middle East Technical University","host_organization_lineage":["https://openalex.org/I201799495"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":null,"raw_type":"Journal Article"}],"best_oa_location":null,"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G5011369134","display_name":null,"funder_award_id":"337569","funder_id":"https://openalex.org/F4320320025","funder_display_name":"British Council"}],"funders":[{"id":"https://openalex.org/F4320320025","display_name":"British Council","ror":"https://ror.org/00t3pr326"}],"has_content":{"grobid_xml":false,"pdf":false},"content_urls":null,"referenced_works_count":56,"referenced_works":["https://openalex.org/W1501531009","https://openalex.org/W1584367161","https://openalex.org/W1972987731","https://openalex.org/W1984994707","https://openalex.org/W2043338013","https://openalex.org/W2044573154","https://openalex.org/W2075155374","https://openalex.org/W2086286404","https://openalex.org/W2097065948","https://openalex.org/W2106440817","https://openalex.org/W2107538253","https://openalex.org/W2114162221","https://openalex.org/W2134526812","https://openalex.org/W2143210482","https://openalex.org/W2145957695","https://openalex.org/W2170551349","https://openalex.org/W2268071782","https://openalex.org/W2311607323","https://openalex.org/W2344399270","https://openalex.org/W2345356016","https://openalex.org/W2502949459","https://openalex.org/W2583907533","https://openalex.org/W2592443008","https://openalex.org/W2594183968","https://openalex.org/W2605952223","https://openalex.org/W2610332124","https://openalex.org/W2620998958","https://openalex.org/W2622236128","https://openalex.org/W2740946158","https://openalex.org/W2772848669","https://openalex.org/W2781821160","https://openalex.org/W2782874671","https://openalex.org/W2785947426","https://openalex.org/W2790808809","https://openalex.org/W2809216727","https://openalex.org/W2886544065","https://openalex.org/W2889677957","https://openalex.org/W2897387455","https://openalex.org/W2899788782","https://openalex.org/W2919115771","https://openalex.org/W2945297971","https://openalex.org/W2949159188","https://openalex.org/W2956769933","https://openalex.org/W2964038500","https://openalex.org/W2969608196","https://openalex.org/W2970971581","https://openalex.org/W2989848927","https://openalex.org/W2998862306","https://openalex.org/W2999554466","https://openalex.org/W3104705366","https://openalex.org/W4295312788","https://openalex.org/W6646535018","https://openalex.org/W6698064614","https://openalex.org/W6736817290","https://openalex.org/W6746269460","https://openalex.org/W6772879131"],"related_works":["https://openalex.org/W4375867731","https://openalex.org/W2611989081","https://openalex.org/W2480711475","https://openalex.org/W2731899572","https://openalex.org/W4380075502","https://openalex.org/W2013003323","https://openalex.org/W1981076832","https://openalex.org/W2024773645","https://openalex.org/W2001717001","https://openalex.org/W2043147644"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2026,"cited_by_count":3},{"year":2025,"cited_by_count":26},{"year":2024,"cited_by_count":26},{"year":2023,"cited_by_count":25},{"year":2022,"cited_by_count":29},{"year":2021,"cited_by_count":10},{"year":2020,"cited_by_count":1}],"updated_date":"2026-03-28T08:17:26.163206","created_date":"2025-10-10T00:00:00"}
