{"id":"https://openalex.org/W4416342976","doi":"https://doi.org/10.3389/fbinf.2025.1716375","title":"Food-derived linear vs. rationally designed cyclic peptides as potent TNF-alpha inhibitors: an integrative computational study","display_name":"Food-derived linear vs. rationally designed cyclic peptides as potent TNF-alpha inhibitors: an integrative computational study","publication_year":2025,"publication_date":"2025-11-18","ids":{"openalex":"https://openalex.org/W4416342976","doi":"https://doi.org/10.3389/fbinf.2025.1716375","pmid":"https://pubmed.ncbi.nlm.nih.gov/41341997"},"language":"en","primary_location":{"id":"doi:10.3389/fbinf.2025.1716375","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2025.1716375","pdf_url":null,"source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://doi.org/10.3389/fbinf.2025.1716375","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5004852403","display_name":"Manisha R. Shah","orcid":"https://orcid.org/0000-0002-0704-9224"},"institutions":[{"id":"https://openalex.org/I876193797","display_name":"Vellore Institute of Technology University","ror":"https://ror.org/00qzypv28","country_code":"IN","type":"education","lineage":["https://openalex.org/I876193797"]}],"countries":["IN"],"is_corresponding":false,"raw_author_name":"Manisha Shah","raw_affiliation_strings":["Department of Bio-Sciences, School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore, Tamil Nadu, India"],"affiliations":[{"raw_affiliation_string":"Department of Bio-Sciences, School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore, Tamil Nadu, India","institution_ids":["https://openalex.org/I876193797"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5101864088","display_name":"Sivakumar Arumugam","orcid":"https://orcid.org/0000-0001-8834-8834"},"institutions":[{"id":"https://openalex.org/I876193797","display_name":"Vellore Institute of Technology University","ror":"https://ror.org/00qzypv28","country_code":"IN","type":"education","lineage":["https://openalex.org/I876193797"]}],"countries":["IN"],"is_corresponding":true,"raw_author_name":"Sivakumar Arumugam","raw_affiliation_strings":["Department of Bio-Sciences, School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore, Tamil Nadu, India"],"affiliations":[{"raw_affiliation_string":"Department of Bio-Sciences, School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore, Tamil Nadu, India","institution_ids":["https://openalex.org/I876193797"]}]}],"institutions":[],"countries_distinct_count":1,"institutions_distinct_count":2,"corresponding_author_ids":["https://openalex.org/A5101864088"],"corresponding_institution_ids":["https://openalex.org/I876193797"],"apc_list":{"value":1900,"currency":"USD","value_usd":1900},"apc_paid":{"value":1900,"currency":"USD","value_usd":1900},"fwci":0.913,"has_fulltext":false,"cited_by_count":1,"citation_normalized_percentile":{"value":0.80705792,"is_in_top_1_percent":false,"is_in_top_10_percent":false},"cited_by_percentile_year":{"min":97,"max":99},"biblio":{"volume":"5","issue":null,"first_page":"1716375","last_page":"1716375"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T11561","display_name":"Protein Hydrolysis and Bioactive Peptides","score":0.5467000007629395,"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/T11561","display_name":"Protein Hydrolysis and Bioactive Peptides","score":0.5467000007629395,"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/T13326","display_name":"Biochemical and Structural Characterization","score":0.07240000367164612,"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/T11584","display_name":"Biochemical Analysis and Sensing Techniques","score":0.025299999862909317,"subfield":{"id":"https://openalex.org/subfields/2916","display_name":"Nutrition and Dietetics"},"field":{"id":"https://openalex.org/fields/29","display_name":"Nursing"},"domain":{"id":"https://openalex.org/domains/4","display_name":"Health Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/cyclic-peptide","display_name":"Cyclic peptide","score":0.576200008392334},{"id":"https://openalex.org/keywords/peptide","display_name":"Peptide","score":0.44040000438690186},{"id":"https://openalex.org/keywords/inflammation","display_name":"Inflammation","score":0.41290000081062317},{"id":"https://openalex.org/keywords/structure\u2013activity-relationship","display_name":"Structure\u2013activity relationship","score":0.29679998755455017},{"id":"https://openalex.org/keywords/sequence","display_name":"Sequence (biology)","score":0.26420000195503235}],"concepts":[{"id":"https://openalex.org/C60984968","wikidata":"https://www.wikidata.org/wiki/Q389172","display_name":"Cyclic peptide","level":3,"score":0.576200008392334},{"id":"https://openalex.org/C185592680","wikidata":"https://www.wikidata.org/wiki/Q2329","display_name":"Chemistry","level":0,"score":0.5223000049591064},{"id":"https://openalex.org/C2779281246","wikidata":"https://www.wikidata.org/wiki/Q172847","display_name":"Peptide","level":2,"score":0.44040000438690186},{"id":"https://openalex.org/C2776914184","wikidata":"https://www.wikidata.org/wiki/Q101991","display_name":"Inflammation","level":2,"score":0.41290000081062317},{"id":"https://openalex.org/C98274493","wikidata":"https://www.wikidata.org/wiki/Q128406","display_name":"Pharmacology","level":1,"score":0.39399999380111694},{"id":"https://openalex.org/C70721500","wikidata":"https://www.wikidata.org/wiki/Q177005","display_name":"Computational biology","level":1,"score":0.3935999870300293},{"id":"https://openalex.org/C71240020","wikidata":"https://www.wikidata.org/wiki/Q186011","display_name":"Stereochemistry","level":1,"score":0.3431999981403351},{"id":"https://openalex.org/C21951064","wikidata":"https://www.wikidata.org/wiki/Q899212","display_name":"Combinatorial chemistry","level":1,"score":0.34139999747276306},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.32010000944137573},{"id":"https://openalex.org/C55493867","wikidata":"https://www.wikidata.org/wiki/Q7094","display_name":"Biochemistry","level":1,"score":0.3122999966144562},{"id":"https://openalex.org/C193042331","wikidata":"https://www.wikidata.org/wiki/Q1772003","display_name":"Structure\u2013activity relationship","level":3,"score":0.29679998755455017},{"id":"https://openalex.org/C71924100","wikidata":"https://www.wikidata.org/wiki/Q11190","display_name":"Medicine","level":0,"score":0.2955000102519989},{"id":"https://openalex.org/C2778112365","wikidata":"https://www.wikidata.org/wiki/Q3511065","display_name":"Sequence (biology)","level":2,"score":0.26420000195503235},{"id":"https://openalex.org/C51639874","wikidata":"https://www.wikidata.org/wiki/Q167149","display_name":"Plasma protein binding","level":2,"score":0.25459998846054077}],"mesh":[],"locations_count":3,"locations":[{"id":"doi:10.3389/fbinf.2025.1716375","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2025.1716375","pdf_url":null,"source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},{"id":"pmid:41341997","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/41341997","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":"Frontiers in bioinformatics","raw_type":null},{"id":"pmh:oai:doaj.org/article:9e29efeccd514088b314c5484fa9c7c3","is_oa":true,"landing_page_url":"https://doaj.org/article/9e29efeccd514088b314c5484fa9c7c3","pdf_url":null,"source":{"id":"https://openalex.org/S112646816","display_name":"SHILAP Revista de lepidopterolog\u00eda","issn_l":"0300-5267","issn":["0300-5267","2340-4078"],"is_oa":true,"is_in_doaj":true,"is_core":false,"host_organization":null,"host_organization_name":null,"host_organization_lineage":[],"host_organization_lineage_names":[],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Frontiers in Bioinformatics, Vol 5 (2025)","raw_type":"article"}],"best_oa_location":{"id":"doi:10.3389/fbinf.2025.1716375","is_oa":true,"landing_page_url":"https://doi.org/10.3389/fbinf.2025.1716375","pdf_url":null,"source":{"id":"https://openalex.org/S4210219554","display_name":"Frontiers in Bioinformatics","issn_l":"2673-7647","issn":["2673-7647"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320527","host_organization_name":"Frontiers Media","host_organization_lineage":["https://openalex.org/P4310320527"],"host_organization_lineage_names":["Frontiers Media"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"Frontiers in Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[],"funders":[],"has_content":{"pdf":false,"grobid_xml":false},"content_urls":null,"referenced_works_count":49,"referenced_works":["https://openalex.org/W811053078","https://openalex.org/W1004448681","https://openalex.org/W1266652907","https://openalex.org/W1959148860","https://openalex.org/W1966330696","https://openalex.org/W1980429250","https://openalex.org/W1989783048","https://openalex.org/W2002209097","https://openalex.org/W2009867031","https://openalex.org/W2011181393","https://openalex.org/W2034463755","https://openalex.org/W2065176157","https://openalex.org/W2131847864","https://openalex.org/W2163866986","https://openalex.org/W2190558971","https://openalex.org/W2213165966","https://openalex.org/W2220304444","https://openalex.org/W2280904264","https://openalex.org/W2612598385","https://openalex.org/W2794956775","https://openalex.org/W2799876761","https://openalex.org/W2905232362","https://openalex.org/W2910717197","https://openalex.org/W2926626251","https://openalex.org/W2931148725","https://openalex.org/W2937722580","https://openalex.org/W2958691256","https://openalex.org/W2966580659","https://openalex.org/W3036997165","https://openalex.org/W3122685121","https://openalex.org/W3134454558","https://openalex.org/W3186435270","https://openalex.org/W3202287440","https://openalex.org/W4206722897","https://openalex.org/W4296777868","https://openalex.org/W4376131227","https://openalex.org/W4384937436","https://openalex.org/W4391430255","https://openalex.org/W4399364419","https://openalex.org/W4399497299","https://openalex.org/W4399731408","https://openalex.org/W4400257337","https://openalex.org/W4400390698","https://openalex.org/W4406062782","https://openalex.org/W4406606770","https://openalex.org/W4408461864","https://openalex.org/W4410325586","https://openalex.org/W4412845492","https://openalex.org/W4412929243"],"related_works":[],"abstract_inverted_index":{"These":[0],"results":[1],"indicate":[2],"that":[3],"dietary":[4],"peptides":[5,33],"can":[6],"serve":[7],"as":[8,34],"templates":[9],"for":[10,30,51],"TNF-alpha":[11,36],"inhibition,":[12],"and":[13,21,38,44,54],"interface-guided":[14],"cyclization":[15],"rationally":[16],"enhances":[17],"stability,":[18],"binding":[19],"affinity,":[20],"drug-like":[22],"properties.":[23],"This":[24],"study":[25],"provides":[26],"a":[27],"mechanistic":[28],"framework":[29],"developing":[31],"food-derived":[32],"next-generation":[35],"antagonists":[37],"supports":[39],"United":[40],"Nations":[41],"SDGs":[42],"3":[43],"9":[45],"by":[46],"promoting":[47],"innovative,":[48],"low-toxicity":[49],"therapeutics":[50],"chronic":[52],"inflammation":[53],"cardiovascular":[55],"diseases.":[56]},"counts_by_year":[{"year":2026,"cited_by_count":1}],"updated_date":"2026-03-07T16:01:11.037858","created_date":"2025-11-18T00:00:00"}
