{"id":"https://openalex.org/W2585550865","doi":"https://doi.org/10.1093/bioinformatics/btx053","title":"Efficient computation of transfer free energies of amino acids in beta-barrel membrane proteins","display_name":"Efficient computation of transfer free energies of amino acids in beta-barrel membrane proteins","publication_year":2017,"publication_date":"2017-01-30","ids":{"openalex":"https://openalex.org/W2585550865","doi":"https://doi.org/10.1093/bioinformatics/btx053","mag":"2585550865","pmid":"https://pubmed.ncbi.nlm.nih.gov/28158457"},"language":"en","primary_location":{"id":"doi:10.1093/bioinformatics/btx053","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx053","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/11/1664/25153751/btx053.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/33/11/1664/25153751/btx053.pdf","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5091510674","display_name":"Wei Tian","orcid":"https://orcid.org/0000-0002-2146-1717"},"institutions":[{"id":"https://openalex.org/I39422238","display_name":"University of Illinois Chicago","ror":"https://ror.org/02mpq6x41","country_code":"US","type":"education","lineage":["https://openalex.org/I39422238"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Wei Tian","raw_affiliation_strings":["Richard and Loan Hill Department of Bioengineering, University of Illinois at Chicago, Chicago, IL, USA"],"affiliations":[{"raw_affiliation_string":"Richard and Loan Hill Department of Bioengineering, University of Illinois at Chicago, Chicago, IL, USA","institution_ids":["https://openalex.org/I39422238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5102866491","display_name":"Meishan Lin","orcid":"https://orcid.org/0000-0003-4892-5320"},"institutions":[{"id":"https://openalex.org/I39422238","display_name":"University of Illinois Chicago","ror":"https://ror.org/02mpq6x41","country_code":"US","type":"education","lineage":["https://openalex.org/I39422238"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Meishan Lin","raw_affiliation_strings":["Richard and Loan Hill Department of Bioengineering, University of Illinois at Chicago, Chicago, IL, USA"],"affiliations":[{"raw_affiliation_string":"Richard and Loan Hill Department of Bioengineering, University of Illinois at Chicago, Chicago, IL, USA","institution_ids":["https://openalex.org/I39422238"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5074736458","display_name":"Hammad Naveed","orcid":"https://orcid.org/0000-0002-1867-974X"},"institutions":[{"id":"https://openalex.org/I160992636","display_name":"Toyota Technological Institute at Chicago","ror":"https://ror.org/02sn5gb64","country_code":"US","type":"education","lineage":["https://openalex.org/I160992636"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Hammad Naveed","raw_affiliation_strings":["Toyota Technological Institute at Chicago, Chicago, IL, USA"],"affiliations":[{"raw_affiliation_string":"Toyota Technological Institute at Chicago, Chicago, IL, USA","institution_ids":["https://openalex.org/I160992636"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5091558783","display_name":"Jie Liang","orcid":"https://orcid.org/0000-0002-2773-6427"},"institutions":[{"id":"https://openalex.org/I39422238","display_name":"University of Illinois Chicago","ror":"https://ror.org/02mpq6x41","country_code":"US","type":"education","lineage":["https://openalex.org/I39422238"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Jie Liang","raw_affiliation_strings":["Richard and Loan Hill Department of Bioengineering, University of Illinois at Chicago, Chicago, IL, USA"],"affiliations":[{"raw_affiliation_string":"Richard and Loan Hill Department of Bioengineering, University of Illinois at Chicago, Chicago, IL, USA","institution_ids":["https://openalex.org/I39422238"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":4,"corresponding_author_ids":["https://openalex.org/A5091558783"],"corresponding_institution_ids":["https://openalex.org/I39422238"],"apc_list":{"value":3618,"currency":"USD","value_usd":3618},"apc_paid":null,"fwci":0.3368,"has_fulltext":true,"cited_by_count":3,"citation_normalized_percentile":{"value":0.5884975,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":90,"max":94},"biblio":{"volume":"33","issue":"11","first_page":"1664","last_page":"1671"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T10407","display_name":"Lipid Membrane Structure and Behavior","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/T10407","display_name":"Lipid Membrane Structure and Behavior","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/T10521","display_name":"RNA and protein synthesis mechanisms","score":0.9990000128746033,"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/T10044","display_name":"Protein Structure and Dynamics","score":0.9980999827384949,"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/beta","display_name":"BETA (programming language)","score":0.7696171998977661},{"id":"https://openalex.org/keywords/computation","display_name":"Computation","score":0.7020506858825684},{"id":"https://openalex.org/keywords/barrel","display_name":"Barrel (horology)","score":0.5602415800094604},{"id":"https://openalex.org/keywords/membrane","display_name":"Membrane","score":0.5386000275611877},{"id":"https://openalex.org/keywords/amino-acid","display_name":"Amino acid","score":0.5381646156311035},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.43946096301078796},{"id":"https://openalex.org/keywords/membrane-protein","display_name":"Membrane protein","score":0.433609277009964},{"id":"https://openalex.org/keywords/chemistry","display_name":"Chemistry","score":0.42311882972717285},{"id":"https://openalex.org/keywords/transfer","display_name":"Transfer (computing)","score":0.41770702600479126},{"id":"https://openalex.org/keywords/algorithm","display_name":"Algorithm","score":0.3562491536140442},{"id":"https://openalex.org/keywords/biophysics","display_name":"Biophysics","score":0.34456491470336914},{"id":"https://openalex.org/keywords/biological-system","display_name":"Biological system","score":0.3325662910938263},{"id":"https://openalex.org/keywords/biochemistry","display_name":"Biochemistry","score":0.2834603190422058},{"id":"https://openalex.org/keywords/biology","display_name":"Biology","score":0.210182785987854},{"id":"https://openalex.org/keywords/materials-science","display_name":"Materials science","score":0.1894720196723938},{"id":"https://openalex.org/keywords/parallel-computing","display_name":"Parallel computing","score":0.15444347262382507},{"id":"https://openalex.org/keywords/programming-language","display_name":"Programming language","score":0.11038178205490112}],"concepts":[{"id":"https://openalex.org/C2776174256","wikidata":"https://www.wikidata.org/wiki/Q830842","display_name":"BETA (programming language)","level":2,"score":0.7696171998977661},{"id":"https://openalex.org/C45374587","wikidata":"https://www.wikidata.org/wiki/Q12525525","display_name":"Computation","level":2,"score":0.7020506858825684},{"id":"https://openalex.org/C172227984","wikidata":"https://www.wikidata.org/wiki/Q1400397","display_name":"Barrel (horology)","level":2,"score":0.5602415800094604},{"id":"https://openalex.org/C41625074","wikidata":"https://www.wikidata.org/wiki/Q176088","display_name":"Membrane","level":2,"score":0.5386000275611877},{"id":"https://openalex.org/C515207424","wikidata":"https://www.wikidata.org/wiki/Q8066","display_name":"Amino acid","level":2,"score":0.5381646156311035},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.43946096301078796},{"id":"https://openalex.org/C144647389","wikidata":"https://www.wikidata.org/wiki/Q423042","display_name":"Membrane protein","level":3,"score":0.433609277009964},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.42311882972717285},{"id":"https://openalex.org/C2776175482","wikidata":"https://www.wikidata.org/wiki/Q1195816","display_name":"Transfer (computing)","level":2,"score":0.41770702600479126},{"id":"https://openalex.org/C11413529","wikidata":"https://www.wikidata.org/wiki/Q8366","display_name":"Algorithm","level":1,"score":0.3562491536140442},{"id":"https://openalex.org/C12554922","wikidata":"https://www.wikidata.org/wiki/Q7100","display_name":"Biophysics","level":1,"score":0.34456491470336914},{"id":"https://openalex.org/C186060115","wikidata":"https://www.wikidata.org/wiki/Q30336093","display_name":"Biological system","level":1,"score":0.3325662910938263},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.2834603190422058},{"id":"https://openalex.org/C86803240","wikidata":"https://www.wikidata.org/wiki/Q420","display_name":"Biology","level":0,"score":0.210182785987854},{"id":"https://openalex.org/C192562407","wikidata":"https://www.wikidata.org/wiki/Q228736","display_name":"Materials science","level":0,"score":0.1894720196723938},{"id":"https://openalex.org/C173608175","wikidata":"https://www.wikidata.org/wiki/Q232661","display_name":"Parallel computing","level":1,"score":0.15444347262382507},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.11038178205490112},{"id":"https://openalex.org/C159985019","wikidata":"https://www.wikidata.org/wiki/Q181790","display_name":"Composite material","level":1,"score":0.0}],"mesh":[{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000465","descriptor_name":"Algorithms","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D001426","descriptor_name":"Bacterial Proteins","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006090","descriptor_name":"Gram-Negative Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006090","descriptor_name":"Gram-Negative Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006090","descriptor_name":"Gram-Negative Bacteria","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D008565","descriptor_name":"Membrane Proteins","qualifier_ui":"Q000737","qualifier_name":"chemistry","is_major_topic":false},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D013816","descriptor_name":"Thermodynamics","qualifier_ui":null,"qualifier_name":null,"is_major_topic":true},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D017433","descriptor_name":"Protein Structure, Secondary","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false}],"locations_count":4,"locations":[{"id":"doi:10.1093/bioinformatics/btx053","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx053","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/11/1664/25153751/btx053.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:28158457","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/28158457","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:europepmc.org:4930907","is_oa":false,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/5860226","pdf_url":null,"source":{"id":"https://openalex.org/S4306400806","display_name":"Europe PMC (PubMed Central)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1303153112","host_organization_name":"European Bioinformatics Institute","host_organization_lineage":["https://openalex.org/I1303153112"],"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":"Text"},{"id":"pmh:oai:figshare.com:article/10959323","is_oa":true,"landing_page_url":"https://figshare.com/articles/journal_contribution/Efficient_computation_of_transfer_free_energies_of_amino_acids_in_beta-barrel_membrane_proteins/10959323","pdf_url":null,"source":{"id":"https://openalex.org/S4377196282","display_name":"Figshare","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4210132348","host_organization_name":"Figshare (United Kingdom)","host_organization_lineage":["https://openalex.org/I4210132348"],"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":"","raw_type":"Text"}],"best_oa_location":{"id":"doi:10.1093/bioinformatics/btx053","is_oa":true,"landing_page_url":"https://doi.org/10.1093/bioinformatics/btx053","pdf_url":"https://academic.oup.com/bioinformatics/article-pdf/33/11/1664/25153751/btx053.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":[{"score":0.8600000143051147,"display_name":"Affordable and clean energy","id":"https://metadata.un.org/sdg/7"}],"awards":[{"id":"https://openalex.org/G3018646388","display_name":null,"funder_award_id":"GM079804","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"pdf":true,"grobid_xml":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2585550865.pdf","grobid_xml":"https://content.openalex.org/works/W2585550865.grobid-xml"},"referenced_works_count":32,"referenced_works":["https://openalex.org/W1495306623","https://openalex.org/W1965906560","https://openalex.org/W1972963835","https://openalex.org/W1975144775","https://openalex.org/W1986203234","https://openalex.org/W1989482916","https://openalex.org/W1997101343","https://openalex.org/W2002745032","https://openalex.org/W2004696942","https://openalex.org/W2011051106","https://openalex.org/W2019215286","https://openalex.org/W2020670123","https://openalex.org/W2025859600","https://openalex.org/W2028997198","https://openalex.org/W2036221216","https://openalex.org/W2037919694","https://openalex.org/W2042281452","https://openalex.org/W2047115921","https://openalex.org/W2049562138","https://openalex.org/W2064959704","https://openalex.org/W2090570211","https://openalex.org/W2097775366","https://openalex.org/W2110434926","https://openalex.org/W2127177253","https://openalex.org/W2132840577","https://openalex.org/W2144956444","https://openalex.org/W2154882487","https://openalex.org/W2171546617","https://openalex.org/W2283046745","https://openalex.org/W2292314415","https://openalex.org/W2329443780","https://openalex.org/W2510407459"],"related_works":["https://openalex.org/W1591700273","https://openalex.org/W2350831561","https://openalex.org/W2056194391","https://openalex.org/W4384881256","https://openalex.org/W2371704579","https://openalex.org/W3039234414","https://openalex.org/W2362782512","https://openalex.org/W2351277499","https://openalex.org/W1986915237","https://openalex.org/W2372155949"],"abstract_inverted_index":{"Supplementary":[0],"data":[1],"are":[2],"available":[3],"at":[4],"Bioinformatics":[5],"online.":[6]},"counts_by_year":[{"year":2019,"cited_by_count":1},{"year":2018,"cited_by_count":1},{"year":2017,"cited_by_count":1}],"updated_date":"2026-04-05T17:49:38.594831","created_date":"2025-10-10T00:00:00"}
