{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,27]],"date-time":"2026-09-27T14:19:58Z","timestamp":1790518798828,"version":"4.1.0"},"reference-count":130,"publisher":"Springer Science and Business Media LLC","issue":"1","license":[{"start":{"date-parts":[[2025,12,26]],"date-time":"2025-12-26T00:00:00Z","timestamp":1766707200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"},{"start":{"date-parts":[[2026,1,6]],"date-time":"2026-01-06T00:00:00Z","timestamp":1767657600000},"content-version":"vor","delay-in-days":11,"URL":"https:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0"}],"funder":[{"DOI":"10.13039\/501100001734","name":"Copenhagen University","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100001734","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["Amino Acids"],"DOI":"10.1007\/s00726-025-03492-z","type":"journal-article","created":{"date-parts":[[2025,12,26]],"date-time":"2025-12-26T09:03:13Z","timestamp":1766739793000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":7,"title":["NGS and the design of an optimized phage display workflow for peptide discovery"],"prefix":"10.1007","volume":"58","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-5024-6688","authenticated-orcid":false,"given":"Babak","family":"Bakhshinejad","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2706-5547","authenticated-orcid":false,"given":"Andreas","family":"Kjaer","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2025,12,26]]},"reference":[{"key":"3492_CR1","doi-asserted-by":"publisher","first-page":"509","DOI":"10.1016\/B978-0-12-374984-0.00989-X","volume-title":"Brenner's encyclopedia of genetics","author":"S Abedon","year":"2013","unstructured":"Abedon S, Bartom E (2013) Multiplicity of infection. Brenner\u2019s encyclopedia of genetics, 2nd edn. Elsevier Inc, Amsterdam, pp 509\u2013510","edition":"2"},{"key":"3492_CR2","doi-asserted-by":"publisher","first-page":"622","DOI":"10.1016\/j.ab.2011.11.005","volume":"421","author":"P Ac\u2019t Hoen","year":"2012","unstructured":"Ac\u2019t Hoen P, Jirka SM, Ten Broeke BR, Schultes EA, Aguilera B, Pang KH, Heemskerk H, Aartsma-Rus A, Van Ommen GJ, Den Dunnen JT (2012) Phage display screening without repetitious selection rounds. Anal Biochem 421:622\u2013631","journal-title":"Anal Biochem"},{"key":"3492_CR3","doi-asserted-by":"publisher","DOI":"10.1038\/mtna.2015.4","author":"KK Alam","year":"2015","unstructured":"Alam KK, Chang JL, Burke DH (2015) Fastaptamer: a bioinformatic toolkit for high-throughput sequence analysis of combinatorial selections. Mol Ther. https:\/\/doi.org\/10.1038\/mtna.2015.4","journal-title":"Mol Ther"},{"key":"3492_CR4","doi-asserted-by":"publisher","DOI":"10.1016\/j.bpr.2024.100166","author":"T Altendorf","year":"2024","unstructured":"Altendorf T, Mohrl\u00fcder J, Willbold D (2024) TSAT: efficient evaluation software for NGS data of phage\/mirror-image phage display selections. Biophys Rep. https:\/\/doi.org\/10.1016\/j.bpr.2024.100166","journal-title":"Biophys Rep"},{"key":"3492_CR5","doi-asserted-by":"publisher","first-page":"W202","DOI":"10.1093\/nar\/gkp335","volume":"37","author":"TL Bailey","year":"2009","unstructured":"Bailey TL, Boden M, Buske FA, Frith M, Grant CE, Clementi L, Ren J, Li WW, Noble WS (2009) MEME SUITE: tools for motif discovery and searching. Nucleic Acids Res 37:W202\u2013W208","journal-title":"Nucleic Acids Res"},{"key":"3492_CR6","doi-asserted-by":"publisher","first-page":"975","DOI":"10.3390\/v17070975","volume":"17","author":"B Bakhshinejad","year":"2025","unstructured":"Bakhshinejad B, Ghiasvand S (2025) A beautiful bind: phage display and the search for cell-selective peptides. Viruses 17:975","journal-title":"Viruses"},{"key":"3492_CR7","doi-asserted-by":"publisher","first-page":"1571679","DOI":"10.3389\/fmicb.2025.1571679","volume":"16","author":"B Bakhshinejad","year":"2025","unstructured":"Bakhshinejad B, Kjaer A (2025) On the origin of non-specific binders isolated in the selection of phage display peptide libraries. Front Microbiol 16:1571679","journal-title":"Front Microbiol"},{"key":"3492_CR8","doi-asserted-by":"publisher","first-page":"2753","DOI":"10.1002\/bab.2320","volume":"69","author":"B Bakhshinejad","year":"2022","unstructured":"Bakhshinejad B, Sadeghizadeh M (2022) Identification of a novel colon adenocarcinoma cell targeting peptide using phage display library biopanning. Biotechnol Appl Biochem 69:2753\u20132765","journal-title":"Biotechnol Appl Biochem"},{"key":"3492_CR9","doi-asserted-by":"publisher","first-page":"2699","DOI":"10.1007\/s00726-016-2329-6","volume":"48","author":"B Bakhshinejad","year":"2016","unstructured":"Bakhshinejad B, Zade HM, Shekarabi HSZ, Neman S (2016) Phage display biopanning and isolation of target-unrelated peptides: in search of nonspecific binders hidden in a combinatorial library. Amino Acids 48:2699\u20132716","journal-title":"Amino Acids"},{"key":"3492_CR10","doi-asserted-by":"publisher","first-page":"21","DOI":"10.1002\/jmr.752","volume":"19","author":"V Batori","year":"2006","unstructured":"Batori V, Friis EP, Nielsen H, Roggen EL (2006) An in silico method using an epitope motif database for predicting the location of antigenic determinants on proteins in a structural context. J Mol Recognition: Interdisciplinary J 19:21\u201329","journal-title":"J Mol Recognition: Interdisciplinary J"},{"key":"3492_CR11","doi-asserted-by":"publisher","first-page":"2834","DOI":"10.1002\/eji.201242999","volume":"42","author":"PD Baum","year":"2012","unstructured":"Baum PD, Venturi V, Price DA (2012) Wrestling with the repertoire: the promise and perils of next generation sequencing for antigen receptors. Eur J Immunol 42:2834\u20132839","journal-title":"Eur J Immunol"},{"key":"3492_CR12","doi-asserted-by":"publisher","DOI":"10.3390\/ijms21010215","volume":"21","author":"K Bozovi\u010dar","year":"2019","unstructured":"Bozovi\u010dar K, Bratkovi\u010d T (2019) Evolving a peptide: library platforms and diversification strategies. Int J Mol Sci 21:215","journal-title":"Int J Mol Sci"},{"key":"3492_CR13","doi-asserted-by":"publisher","first-page":"1360","DOI":"10.3390\/v12121360","volume":"12","author":"R Braun","year":"2020","unstructured":"Braun R, Sch\u00f6nberger N, Vinke S, Lederer F, Kalinowski J, Pollmann K (2020) Application of next generation sequencing (NGS) in phage displayed peptide selection to support the identification of arsenic-binding motifs. Viruses 12:1360","journal-title":"Viruses"},{"key":"3492_CR14","doi-asserted-by":"publisher","first-page":"e0155244","DOI":"10.1371\/journal.pone.0155244","volume":"11","author":"LT Brinton","year":"2016","unstructured":"Brinton LT, Bauknight DK, Dasa SSK, Kelly KA (2016) PHASTpep: analysis software for discovery of cell-selective peptides via phage display and next-generation sequencing. PLoS One 11:e0155244","journal-title":"PLoS One"},{"key":"3492_CR15","doi-asserted-by":"publisher","first-page":"1040","DOI":"10.2174\/138161210790963788","volume":"16","author":"KC Brown","year":"2010","unstructured":"Brown KC (2010) Peptidic tumor targeting agents: the road from phage display peptide selections to clinical applications. Curr Pharm Des 16:1040\u20131054","journal-title":"Curr Pharm Des"},{"key":"3492_CR16","doi-asserted-by":"publisher","first-page":"3499","DOI":"10.3390\/molecules16053499","volume":"16","author":"G Castel","year":"2011","unstructured":"Castel G, Cht\u00e9oui M, Heyd B, Tordo N (2011) Phage display of combinatorial peptide libraries: application to antiviral research. Molecules 16:3499\u20133518","journal-title":"Molecules"},{"key":"3492_CR17","doi-asserted-by":"publisher","DOI":"10.2147\/JBM.S47240","author":"S Chalmers","year":"2015","unstructured":"Chalmers S, Tarantino MD (2015) Romiplostim as a treatment for immune thrombocytopenia: a review. J Blood Med. https:\/\/doi.org\/10.2147\/JBM.S47240","journal-title":"J Blood Med"},{"key":"3492_CR18","doi-asserted-by":"publisher","first-page":"165","DOI":"10.1007\/978-1-4939-8648-4_9","volume-title":"Antibody engineering: methods and protocols","author":"M Colazet","year":"2018","unstructured":"Colazet M, Chames P (2018) Phage display and selections on purified antigens. Antibody engineering: methods and protocols. Springer, Berlin, pp 165\u2013178"},{"key":"3492_CR19","doi-asserted-by":"publisher","DOI":"10.1126\/sciadv.ads5589","volume":"11","author":"G Croce","year":"2025","unstructured":"Croce G, Lani R, Tardivon D, Bobisse S, De Tiani M, Bragina M, Perez MA, Michaux J, Pak HS, Michel A (2025) Phage display enables machine learning discovery of cancer antigen\u2013specific TCRs. Sci Adv 11:eads5589","journal-title":"Sci Adv"},{"key":"3492_CR20","doi-asserted-by":"publisher","first-page":"6378","DOI":"10.1073\/pnas.87.16.6378","volume":"87","author":"SE Cwirla","year":"1990","unstructured":"Cwirla SE, Peters EA, Barrett RW, Dower WJ (1990) Peptides on phage: a vast library of peptides for identifying ligands. Proc Natl Acad Sci 87:6378\u20136382","journal-title":"Proc Natl Acad Sci"},{"key":"3492_CR21","doi-asserted-by":"publisher","first-page":"191","DOI":"10.1016\/S0022-1759(00)00318-5","volume":"247","author":"F D\u2019mello","year":"2001","unstructured":"D\u2019mello F, Howard CR (2001) An improved selection procedure for the screening of phage display peptide libraries. J Immunol Methods 247:191\u2013203","journal-title":"J Immunol Methods"},{"key":"3492_CR22","doi-asserted-by":"publisher","first-page":"404","DOI":"10.1126\/science.2143033","volume":"249","author":"JJ Devlin","year":"1990","unstructured":"Devlin JJ, Panganiban LC, Devlin PE (1990) Random peptide libraries: a source of specific protein binding molecules. Science 249:404\u2013406","journal-title":"Science"},{"key":"3492_CR23","doi-asserted-by":"publisher","first-page":"1866","DOI":"10.1021\/acs.accounts.7b00184","volume":"50","author":"K Deyle","year":"2017","unstructured":"Deyle K, Kong X-D, Heinis C (2017) Phage selection of cyclic peptides for application in research and drug development. Acc Chem Res 50:1866\u20131874","journal-title":"Acc Chem Res"},{"key":"3492_CR24","doi-asserted-by":"publisher","first-page":"e8338","DOI":"10.1371\/journal.pone.0008338","volume":"4","author":"E Dias-Neto","year":"2009","unstructured":"Dias-Neto E, Nunes DN, Giordano RJ, Sun J, Botz GH, Yang K, Setubal JC, Pasqualini R, Arap W (2009) Next-generation phage display: integrating and comparing available molecular tools to enable cost-effective high-throughput analysis. PLoS ONE 4:e8338","journal-title":"PLoS ONE"},{"key":"3492_CR25","doi-asserted-by":"publisher","DOI":"10.2147\/JBM.S66825","author":"H Duffey","year":"2015","unstructured":"Duffey H, Firszt R (2015) Management of acute attacks of hereditary angioedema: role of ecallantide. J Blood Med. https:\/\/doi.org\/10.2147\/JBM.S66825","journal-title":"J Blood Med"},{"key":"3492_CR26","doi-asserted-by":"publisher","first-page":"e967","DOI":"10.1371\/journal.pone.0000967","volume":"2","author":"RJ Edwards","year":"2007","unstructured":"Edwards RJ, Davey NE, Shields DC (2007) SLiMFinder: a probabilistic method for identifying over-represented, convergently evolved, short linear motifs in proteins. PLoS ONE 2:e967","journal-title":"PLoS ONE"},{"key":"3492_CR27","doi-asserted-by":"publisher","first-page":"1782","DOI":"10.1039\/c0mb00061b","volume":"6","author":"A Ernst","year":"2010","unstructured":"Ernst A, Gfeller D, Kan Z, Seshagiri S, Kim PM, Bader GD, Sidhu SS (2010) Coevolution of PDZ domain\u2013ligand interactions analyzed by high-throughput phage display and deep sequencing. Mol Biosyst 6:1782\u20131790","journal-title":"Mol Biosyst"},{"key":"3492_CR28","doi-asserted-by":"publisher","first-page":"2342","DOI":"10.1039\/C6MB00219F","volume":"12","author":"A Gal\u00e1n","year":"2016","unstructured":"Gal\u00e1n A, Comor L, Horvati\u0107 A, Kule\u0161 J, Guillemin N, Mrljak V, Bhide M (2016) Library-based display technologies: where do we stand? Mol Biosyst 12:2342\u20132358","journal-title":"Mol Biosyst"},{"key":"3492_CR29","doi-asserted-by":"publisher","first-page":"1020","DOI":"10.1021\/cr400166n","volume":"114","author":"BP Gray","year":"2014","unstructured":"Gray BP, Brown KC (2014) Combinatorial peptide libraries: mining for cell-binding peptides. Chem Rev 114:1020\u20131081","journal-title":"Chem Rev"},{"key":"3492_CR30","doi-asserted-by":"publisher","first-page":"1344","DOI":"10.1110\/ps.0237103","volume":"12","author":"I Halperin","year":"2003","unstructured":"Halperin I, Wolfson H, Nussinov R (2003) SiteLight: binding-site prediction using phage display libraries. Protein Sci 12:1344\u20131359","journal-title":"Protein Sci"},{"key":"3492_CR31","doi-asserted-by":"publisher","first-page":"1144","DOI":"10.1016\/j.drudis.2013.09.001","volume":"18","author":"M Hamzeh-Mivehroud","year":"2013","unstructured":"Hamzeh-Mivehroud M, Alizadeh AA, Morris MB, Church WB, Dastmalchi S (2013) Phage display as a technology delivering on the promise of peptide drug discovery. Drug Discov Today 18:1144\u20131157","journal-title":"Drug Discov Today"},{"key":"3492_CR32","doi-asserted-by":"publisher","first-page":"D1127","DOI":"10.1093\/nar\/gkv1100","volume":"44","author":"B He","year":"2016","unstructured":"He B, Chai G, Duan Y, Yan Z, Qiu L, Zhang H, Liu Z, He Q, Han K, Ru B (2016) BDB: biopanning data bank. Nucleic Acids Res 44:D1127\u2013D1132","journal-title":"Nucleic Acids Res"},{"key":"3492_CR33","doi-asserted-by":"crossref","unstructured":"He B, Jiang L, Duan Y, Chai G, Fang Y, Kang J, Yu M, Li N, Tang Z, Yao P (2018a) Biopanning data bank 2018: hugging next generation phage display. Database 2018, bay032","DOI":"10.1093\/database\/bay032"},{"key":"3492_CR34","doi-asserted-by":"publisher","first-page":"1214","DOI":"10.1038\/s41598-018-19439-2","volume":"8","author":"B He","year":"2018","unstructured":"He B, Tjhung KF, Bennett NJ, Chou Y, Rau A, Huang J, Derda R (2018b) Compositional bias in na\u00efve and chemically-modified phage-displayed libraries uncovered by paired-end deep sequencing. Sci Rep 8:1214","journal-title":"Sci Rep"},{"key":"3492_CR35","doi-asserted-by":"publisher","first-page":"7672","DOI":"10.2174\/0929867325666180629123117","volume":"26","author":"B He","year":"2019","unstructured":"He B, Dzisoo AM, Derda R, Huang J (2019) Development and application of computational methods in phage display technology. Curr Med Chem 26:7672\u20137693","journal-title":"Curr Med Chem"},{"key":"3492_CR36","doi-asserted-by":"publisher","first-page":"928774","DOI":"10.3389\/fmicb.2022.928774","volume":"13","author":"B He","year":"2022","unstructured":"He B, Li B, Chen X, Zhang Q, Lu C, Yang S, Long J, Ning L, Chen H, Huang J (2022) PDL1Binder: identifying programmed cell death ligand 1 binding peptides by incorporating next-generation phage display data and different peptide descriptors. Front Microbiol 13:928774","journal-title":"Front Microbiol"},{"key":"3492_CR37","doi-asserted-by":"publisher","DOI":"10.3390\/ijms25168698","volume":"25","author":"R Horneff","year":"2024","unstructured":"Horneff R, Czech B, Yeh M, Surova E (2024) Three years on: the role of pegcetacoplan in paroxysmal nocturnal hemoglobinuria (PNH) since its initial approval. Int J Mol Sci 25:8698","journal-title":"Int J Mol Sci"},{"key":"3492_CR38","doi-asserted-by":"publisher","first-page":"964","DOI":"10.1016\/j.bbrc.2006.01.047","volume":"341","author":"S Hu","year":"2006","unstructured":"Hu S, Guo X, Xie H, Du Y, Pan Y, Shi Y, Wang J, Hong L, Han S, Zhang D (2006) Phage display selection of peptides that inhibit metastasis ability of gastric cancer cells with high liver-metastatic potential. Biochem Biophys Res Commun 341:964\u2013972","journal-title":"Biochem Biophys Res Commun"},{"key":"3492_CR39","doi-asserted-by":"publisher","first-page":"451","DOI":"10.1186\/1471-2105-7-451","volume":"7","author":"J Huang","year":"2006","unstructured":"Huang J, Gutteridge A, Honda W, Kanehisa M (2006) MIMOX: a web tool for phage display based epitope mapping. BMC Bioinformatics 7:451","journal-title":"BMC Bioinformatics"},{"key":"3492_CR40","doi-asserted-by":"crossref","unstructured":"Huang J, Ru B, Li S, Lin H, Guo F-B (2010) SAROTUP: scanner and reporter of target-unrelated peptides. BioMed Res Int 2010, 101932","DOI":"10.1155\/2010\/101932"},{"key":"3492_CR41","doi-asserted-by":"publisher","first-page":"D271","DOI":"10.1093\/nar\/gkr922","volume":"40","author":"J Huang","year":"2012","unstructured":"Huang J, Ru B, Zhu P, Nie F, Yang J, Wang X, Dai P, Lin H, Guo F-B, Rao N (2012) MimoDB 2.0: a mimotope database and beyond. Nucleic Acids Res 40:D271\u2013D277","journal-title":"Nucleic Acids Res"},{"key":"3492_CR42","doi-asserted-by":"publisher","first-page":"4007","DOI":"10.1002\/anie.201600077","volume":"55","author":"F Jalali-Yazdi","year":"2016","unstructured":"Jalali-Yazdi F, Lai H, Takahashi L, T.T., and, Roberts RW (2016) High\u2010throughput measurement of binding kinetics by mRNA display and next\u2010generation sequencing. Angew Chem Int Ed 55:4007\u20134010","journal-title":"Angew Chem Int Ed"},{"key":"3492_CR43","doi-asserted-by":"publisher","first-page":"10624","DOI":"10.1021\/jacs.0c03482","volume":"142","author":"C Juds","year":"2020","unstructured":"Juds C, Schmidt J, Weller MG, Lange T, Beck U, Conrad T, B\u00f6Rner HG (2020) Combining phage display and next-generation sequencing for materials sciences: a case study on probing polypropylene surfaces. J Am Chem Soc 142:10624\u201310628","journal-title":"J Am Chem Soc"},{"key":"3492_CR44","doi-asserted-by":"publisher","first-page":"3308","DOI":"10.3390\/ijms23063308","volume":"23","author":"D Kamstrup Sell","year":"2022","unstructured":"Kamstrup Sell D, Sloth AB, Bakhshinejad B, Kjaer A (2022) A white plaque, associated with genomic deletion, derived from m13ke-based peptide library is enriched in a target-unrelated manner during phage display biopanning due to propagation advantage. Int J Mol Sci 23:3308","journal-title":"Int J Mol Sci"},{"key":"3492_CR45","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0035187","volume":"7","author":"P Kapoor","year":"2012","unstructured":"Kapoor P, Singh H, Gautam A, Chaudhary K, Kumar R, Raghava GP (2012) TumorHoPe: a database of tumor homing peptides. PLoS One 7:e35187","journal-title":"PLoS One"},{"key":"3492_CR46","doi-asserted-by":"publisher","DOI":"10.1016\/j.jbiosc.2025.05.004","author":"S Kawada","year":"2025","unstructured":"Kawada S, Kurumida Y, Ito T, Nguyen TD, Nishi H, Nakazawa H, Saito Y, Kameda T, Tsuda K, Umetsu M (2025) Discovery and affinity maturation of antibody fragments from an unfavorably enriched phage display selection by deep sequencing and machine learning. J Biosci Bioeng. https:\/\/doi.org\/10.1016\/j.jbiosc.2025.05.004","journal-title":"J Biosci Bioeng"},{"key":"3492_CR47","doi-asserted-by":"crossref","unstructured":"Kay BK, Hoess RH (1996) Principles and applications of phage display. Phage Display of Peptides and Proteins. A Laboratory Manual, Academic Press, San Diego, USA, 21\u201329","DOI":"10.1016\/B978-012402380-2\/50004-6"},{"key":"3492_CR48","doi-asserted-by":"publisher","first-page":"4056","DOI":"10.1021\/cr000261r","volume":"105","author":"JW Kehoe","year":"2005","unstructured":"Kehoe JW, Kay BK (2005) Filamentous phage display in the new millennium. Chem Rev 105:4056\u20134072","journal-title":"Chem Rev"},{"key":"3492_CR49","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkr1294","volume":"40","author":"T Kim","year":"2012","unstructured":"Kim T, Tyndel MS, Huang H, Sidhu SS, Bader GD, Gfeller D, Kim PM (2012) MUSI: an integrated system for identifying multiple specificity from very large peptide or nucleic acid data sets. Nucleic Acids Res 40:e47-e47","journal-title":"Nucleic Acids Res"},{"key":"3492_CR50","doi-asserted-by":"publisher","first-page":"9","DOI":"10.1093\/bioinformatics\/btv522","volume":"32","author":"A Krejci","year":"2016","unstructured":"Krejci A, Hupp TR, Lexa M, Vojtesek B, Muller P (2016) Hammock: a hidden Markov model-based peptide clustering algorithm to identify protein-interaction consensus motifs in large datasets. Bioinformatics 32:9\u201316","journal-title":"Bioinformatics"},{"key":"3492_CR51","doi-asserted-by":"publisher","first-page":"79","DOI":"10.1007\/s10989-005-9002-3","volume":"12","author":"LR Krumpe","year":"2006","unstructured":"Krumpe LR, Mori T (2006) The use of phage-displayed peptide libraries to develop tumor-targeting drugs. Int J Pept Res Ther 12:79\u201391","journal-title":"Int J Pept Res Ther"},{"key":"3492_CR52","doi-asserted-by":"publisher","first-page":"9486","DOI":"10.1002\/jcp.27636","volume":"234","author":"M Lakzaei","year":"2019","unstructured":"Lakzaei M, Rasaee MJ, Fazaeli AA, Aminian M (2019) A comparison of three strategies for biopanning of phage-scFv library against diphtheria toxin. J Cell Physiol 234:9486\u20139494","journal-title":"J Cell Physiol"},{"key":"3492_CR53","doi-asserted-by":"publisher","first-page":"D19","DOI":"10.1093\/nar\/gkq1019","volume":"39","author":"R Leinonen","year":"2010","unstructured":"Leinonen R, Sugawara H, Shumway M, Collaboration, I.N.S.D. (2010) The sequence read archive. Nucleic Acids Res 39:D19\u2013D21","journal-title":"Nucleic Acids Res"},{"key":"3492_CR54","doi-asserted-by":"publisher","first-page":"893","DOI":"10.1006\/jmbi.1997.1555","volume":"277","author":"B Levitan","year":"1998","unstructured":"Levitan B (1998) Stochastic modeling and optimization of phage display. J Mol Biol 277:893\u2013916","journal-title":"J Mol Biol"},{"key":"3492_CR55","doi-asserted-by":"publisher","first-page":"1180","DOI":"10.2174\/138161210790945913","volume":"16","author":"ZJ Li","year":"2010","unstructured":"Li ZJ, Cho CH (2010) Development of peptides as potential drugs for cancer therapy. Curr Pharm Des 16:1180\u20131189","journal-title":"Curr Pharm Des"},{"key":"3492_CR56","doi-asserted-by":"publisher","first-page":"587","DOI":"10.1007\/s10989-020-10108-5","volume":"27","author":"C Li","year":"2021","unstructured":"Li C, Li J, Xu Y, Zhan Y, Li Y, Song T, Zheng J, Yang H (2021) Application of phage-displayed peptides in tumor imaging diagnosis and targeting therapy. Int J Pept Res Ther 27:587\u2013595","journal-title":"Int J Pept Res Ther"},{"key":"3492_CR57","doi-asserted-by":"publisher","first-page":"6088","DOI":"10.1038\/s41598-019-42628-6","volume":"9","author":"CC Lim","year":"2019","unstructured":"Lim CC, Woo PC, Lim TS (2019) Development of a phage display panning strategy utilizing crude antigens: isolation of MERS-CoV nucleoprotein human antibodies. Sci Rep 9:6088","journal-title":"Sci Rep"},{"key":"3492_CR58","doi-asserted-by":"publisher","first-page":"1625","DOI":"10.3390\/molecules16021625","volume":"16","author":"T Lindner","year":"2011","unstructured":"Lindner T, Kolmar H, Haberkorn U, Mier W (2011) DNA libraries for the construction of phage libraries: statistical and structural requirements and synthetic methods. Molecules 16:1625\u20131641","journal-title":"Molecules"},{"key":"3492_CR59","doi-asserted-by":"publisher","first-page":"29","DOI":"10.1007\/978-3-030-58174-9_2","volume":"96","author":"P Lingasamy","year":"2021","unstructured":"Lingasamy P, Teesalu T (2021) Homing peptides for cancer therapy. Bio-nanomed Cancer Therapy 96:29\u201348","journal-title":"Bio-nanomed Cancer Therapy"},{"key":"3492_CR60","doi-asserted-by":"publisher","first-page":"914","DOI":"10.1002\/2211-5463.12618","volume":"9","author":"M Lipok","year":"2019","unstructured":"Lipok M, Szlachcic A, Kindela K, Czyrek A, Otlewski J (2019) Identification of a peptide antagonist of the FGF 1\u2013FGFR 1 signaling axis by phage display selection. FEBS Open Bio 9:914\u2013924","journal-title":"FEBS Open Bio"},{"key":"3492_CR61","doi-asserted-by":"publisher","first-page":"875556","DOI":"10.3389\/fmicb.2022.875556","volume":"13","author":"M Lisowska","year":"2022","unstructured":"Lisowska M, Lickiss F, Gil-Mir M, Huart A-S, Trybala Z, Way L, Hernychova L, Krejci A, Muller P, Krejcir R (2022) Next-generation sequencing of a combinatorial peptide phage library screened against ubiquitin identifies peptide aptamers that can inhibit the in vitro ubiquitin transfer cascade. Front Microbiol 13:875556","journal-title":"Front Microbiol"},{"key":"3492_CR62","doi-asserted-by":"publisher","first-page":"1811","DOI":"10.1021\/acs.bioconjchem.5b00344","volume":"26","author":"GW Liu","year":"2015","unstructured":"Liu GW, Livesay BR, Kacherovsky NA, Cieslewicz M, Lutz E, Waalkes A, Jensen MC, Salipante SJ, Pun SH (2015) Efficient identification of murine M2 macrophage peptide targeting ligands by phage display and next-generation sequencing. Bioconjug Chem 26:1811\u20131817","journal-title":"Bioconjug Chem"},{"key":"3492_CR63","doi-asserted-by":"publisher","first-page":"1132","DOI":"10.1111\/mmi.14187","volume":"111","author":"B Loh","year":"2019","unstructured":"Loh B, Kuhn A, Leptihn S (2019) The fascinating biology behind phage display: filamentous phage assembly. Mol Microbiol 111:1132\u20131138","journal-title":"Mol Microbiol"},{"key":"3492_CR64","doi-asserted-by":"publisher","first-page":"50","DOI":"10.1186\/s13059-019-1659-6","volume":"20","author":"X Ma","year":"2019","unstructured":"Ma X, Shao Y, Tian L, Flasch DA, Mulder HL, Edmonson MN, Liu Y, Chen X, Newman S, Nakitandwe J (2019) Analysis of error profiles in deep next-generation sequencing data. Genome Biol 20:50","journal-title":"Genome Biol"},{"key":"3492_CR65","doi-asserted-by":"publisher","first-page":"1439","DOI":"10.1002\/pmic.200300680","volume":"4","author":"S Mandava","year":"2004","unstructured":"Mandava S, Makowski L, Devarapalli S, Uzubell J, Rodi DJ (2004) RELIC\u2013a bioinformatics server for combinatorial peptide analysis and identification of protein-ligand interaction sites. Proteomics 4:1439\u20131460","journal-title":"Proteomics"},{"key":"3492_CR66","doi-asserted-by":"publisher","DOI":"10.1155\/2013\/491612","volume":"2013","author":"WL Matochko","year":"2013","unstructured":"Matochko WL, Derda R (2013) Error analysis of deep sequencing of phage libraries: peptides censored in sequencing. Comput Math Methods Med 2013:491612","journal-title":"Comput Math Methods Med"},{"key":"3492_CR67","doi-asserted-by":"publisher","first-page":"249","DOI":"10.1007\/978-1-4939-2020-4_17","volume":"85","author":"WL Matochko","year":"2015","unstructured":"Matochko WL, Derda R (2015) Next-generation sequencing of phage-displayed peptide libraries. Pept Libr: Methods Protoc 85:249\u2013266","journal-title":"Pept Libr: Methods Protoc"},{"key":"3492_CR68","doi-asserted-by":"publisher","first-page":"47","DOI":"10.1016\/j.ymeth.2012.07.006","volume":"58","author":"WL Matochko","year":"2012","unstructured":"Matochko WL, Chu K, Jin B, Lee SW, Whitesides GM, Derda R (2012) Deep sequencing analysis of phage libraries using illumina platform. Methods 58:47\u201355","journal-title":"Methods"},{"key":"3492_CR69","doi-asserted-by":"publisher","first-page":"1784","DOI":"10.1093\/nar\/gkt1104","volume":"42","author":"WL Matochko","year":"2014","unstructured":"Matochko WL, Cory Li S, Tang SK, Derda R (2014) Prospective identification of parasitic sequences in phage display screens. Nucleic Acids Res 42:1784\u20131798","journal-title":"Nucleic Acids Res"},{"key":"3492_CR70","doi-asserted-by":"publisher","first-page":"208","DOI":"10.2144\/99262bm06","volume":"26","author":"SJ Mcconnell","year":"1999","unstructured":"Mcconnell SJ, Dinh T, Le M-H, Spinella DG (1999) Biopanning phage display libraries using magnetic beads vs. polystyrene plates. Biotechniques 26:208\u2013214","journal-title":"Biotechniques"},{"key":"3492_CR71","doi-asserted-by":"publisher","first-page":"12634","DOI":"10.1039\/D2SC04058A","volume":"13","author":"T Miki","year":"2022","unstructured":"Miki T, Namii K, Seko K, Kakehi S, Moro G, Mihara H (2022) Pattern enrichment analysis for phage selection of stapled peptide ligands. Chem Sci 13:12634\u201312642","journal-title":"Chem Sci"},{"key":"3492_CR72","doi-asserted-by":"publisher","first-page":"857","DOI":"10.3390\/molecules16010857","volume":"16","author":"P Molek","year":"2011","unstructured":"Molek P, Strukelj B, Bratkovic T (2011) Peptide phage display as a tool for drug discovery: targeting membrane receptors. Molecules 16:857\u2013887","journal-title":"Molecules"},{"key":"3492_CR73","doi-asserted-by":"publisher","first-page":"1088","DOI":"10.1093\/bioinformatics\/btl012","volume":"22","author":"V Moreau","year":"2006","unstructured":"Moreau V, Granier C, Villard S, Laune D, Molina F (2006) Discontinuous epitope prediction based on mimotope analysis. Bioinformatics 22:1088\u20131095","journal-title":"Bioinformatics"},{"key":"3492_CR74","doi-asserted-by":"publisher","first-page":"7612","DOI":"10.1002\/jcb.28036","volume":"120","author":"F Nafian","year":"2019","unstructured":"Nafian F, Rasaee MJ, Yazdani S, Daftarian N, Soheili ZS, Doust K, Azad B (2019) Peptide selected by phage display increases survival of SH-SY5Y neurons comparable to brain\u2010derived neurotrophic factor. J Cell Biochem 120:7612\u20137622","journal-title":"J Cell Biochem"},{"key":"3492_CR75","doi-asserted-by":"crossref","unstructured":"Negi SS, Braun W (2009) Automated detection of conformational epitopes using phage display peptide sequences. Bioinformatics and biology insights 3, BBI. S2745","DOI":"10.4137\/BBI.S2745"},{"key":"3492_CR76","doi-asserted-by":"publisher","first-page":"181","DOI":"10.1021\/acssynbio.9b00419","volume":"9","author":"MS Newton","year":"2019","unstructured":"Newton MS, Cabezas-Perusse Y, Tong CL, Seelig B (2019) In vitro selection of peptides and proteins\u2014advantages of mRNA display. ACS Synth Biol 9:181\u2013190","journal-title":"ACS Synth Biol"},{"key":"3492_CR77","first-page":"1","volume":"2","author":"JR Newton-Northup","year":"2012","unstructured":"Newton-Northup JR, Deutscher SL (2012) Contending with target unrelated peptides from phage display. J Mol Imaging Dynam 2:1\u20133","journal-title":"J Mol Imaging Dynam"},{"key":"3492_CR78","doi-asserted-by":"publisher","first-page":"35","DOI":"10.1016\/j.ab.2014.06.007","volume":"462","author":"KT Nguyen","year":"2014","unstructured":"Nguyen KT, Adamkiewicz MA, Hebert LE, Zygiel EM, Boyle HR, Martone CM, Mel\u00e9ndez-R\u00edos CB, Noren KA, Noren CJ, Hall MF (2014) Identification and characterization of mutant clones with enhanced propagation rates from phage-displayed peptide libraries. Anal Biochem 462:35\u201343","journal-title":"Anal Biochem"},{"key":"3492_CR79","first-page":"123077","volume":"12","author":"AYW Ning","year":"2024","unstructured":"Ning AYW, Chun SCY, Hsum YW, Loo WC, Yin ACY, Quan TY (2024) Phage display screening in breast cancer: From peptide discovery to clinical applications. Life Sci 12:123077","journal-title":"Life Sci"},{"key":"3492_CR80","doi-asserted-by":"publisher","first-page":"671","DOI":"10.1128\/jb.107.3.671-682.1971","volume":"107","author":"CP Novotny","year":"1971","unstructured":"Novotny CP, Lavin K (1971) Some effects of temperature on the growth of F pili. J Bacteriol 107:671\u2013682","journal-title":"J Bacteriol"},{"key":"3492_CR81","doi-asserted-by":"publisher","first-page":"49","DOI":"10.1016\/S0022-2836(02)00561-2","volume":"321","author":"D O'connell","year":"2002","unstructured":"O\u2019connell D, Becerril B, Roy-Burman A, Daws M, Marks JD (2002) Phage versus phagemid libraries for generation of human monoclonal antibodies. J Mol Biol 321:49\u201356","journal-title":"J Mol Biol"},{"key":"3492_CR82","doi-asserted-by":"publisher","DOI":"10.3390\/ijms23158470","volume":"23","author":"N Panagides","year":"2022","unstructured":"Panagides N, Zacchi LF, De Souza MJ, Morales RA, Karnowski A, Liddament MT, Owczarek CM, Mahler SM, Panousis C, Jones ML (2022) Evaluation of phage display biopanning strategies for the selection of anti-cell surface receptor antibodies. Int J Mol Sci 23:8470","journal-title":"Int J Mol Sci"},{"key":"3492_CR83","doi-asserted-by":"publisher","first-page":"849","DOI":"10.1016\/j.biotechadv.2010.07.004","volume":"28","author":"J Pande","year":"2010","unstructured":"Pande J, Szewczyk MM, Grover AK (2010) Phage display: concept, innovations, applications and future. Biotechnol Adv 28:849\u2013858","journal-title":"Biotechnol Adv"},{"key":"3492_CR84","doi-asserted-by":"publisher","first-page":"305","DOI":"10.1016\/0378-1119(88)90495-7","volume":"73","author":"SF Parmley","year":"1988","unstructured":"Parmley SF, Smith GP (1988) Antibody-selectable filamentous Fd phage vectors: affinity purification of target genes. Gene 73:305\u2013318","journal-title":"Gene"},{"key":"3492_CR85","doi-asserted-by":"publisher","first-page":"2","DOI":"10.1007\/s00253-005-0270-9","volume":"70","author":"M Paschke","year":"2006","unstructured":"Paschke M (2006) Phage display systems and their applications. Appl Microbiol Biotechnol 70:2\u201311","journal-title":"Appl Microbiol Biotechnol"},{"key":"3492_CR86","doi-asserted-by":"publisher","first-page":"1594","DOI":"10.3390\/ijms24021594","volume":"24","author":"KG Petry","year":"2023","unstructured":"Petry KG, Pilalis E, Chatziioannou A (2023) Comparative evaluation of reproducibility of Phage-Displayed peptide selections and NGS data, through high-fidelity mapping of massive peptide repertoires. Int J Mol Sci 24:1594","journal-title":"Int J Mol Sci"},{"key":"3492_CR87","doi-asserted-by":"publisher","first-page":"675","DOI":"10.1002\/bip.360360513","volume":"36","author":"E Pizzi","year":"1995","unstructured":"Pizzi E, Cortese R, Tramontane A (1995) Mapping epitopes on protein surfaces. Biopolymers: Original Res Biomolecules 36:675\u2013680","journal-title":"Biopolymers: Original Res Biomolecules"},{"key":"3492_CR88","doi-asserted-by":"publisher","first-page":"129","DOI":"10.1016\/j.jmb.2012.01.038","volume":"417","author":"H Qi","year":"2012","unstructured":"Qi H, Lu H, Qiu H-J, Petrenko V, Liu A (2012) Phagemid vectors for phage display: properties, characteristics and construction. J Mol Biol 417:129\u2013143","journal-title":"J Mol Biol"},{"key":"3492_CR89","doi-asserted-by":"crossref","unstructured":"Rakonjac J, Russel M, Khanum S, Brooke SJ, Raji\u010d M (2017) Filamentous phage: structure and biology. Recombinant antibodies for infectious diseases, 1\u201320","DOI":"10.1007\/978-3-319-72077-7_1"},{"key":"3492_CR90","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkq789","volume":"38","author":"U Ravn","year":"2010","unstructured":"Ravn U, Gueneau F, Baerlocher L, Osteras M, Desmurs M, Malinge P, Magistrelli G, Farinelli L, Kosco-Vilbois M, Fischer N (2010) By-passing in vitro screening\u2014next generation sequencing technologies applied to antibody display and in silico candidate selection. Nucleic Acids Res 38:e193-e193","journal-title":"Nucleic Acids Res"},{"key":"3492_CR91","volume":"42","author":"I Rentero Rebollo","year":"2014","unstructured":"Rentero Rebollo I, Sabisz M, Baeriswyl V, Heinis C (2014) Identification of target-binding peptide motifs by high-throughput sequencing of phage-selected peptides. Nucleic Acids Res 42:e169-e169","journal-title":"Nucleic Acids Res"},{"key":"3492_CR92","doi-asserted-by":"publisher","first-page":"87","DOI":"10.1016\/S0958-1669(99)80016-0","volume":"10","author":"DJ Rodi","year":"1999","unstructured":"Rodi DJ, Makowski L (1999) Phage-display technology\u2013finding a needle in a vast molecular haystack. Curr Opin Biotechnol 10:87\u201393","journal-title":"Curr Opin Biotechnol"},{"key":"3492_CR93","doi-asserted-by":"publisher","first-page":"239","DOI":"10.1002\/pros.1068","volume":"47","author":"VI Romanov","year":"2001","unstructured":"Romanov VI, Durand DB, Petrenko VA (2001) Phage display selection of peptides that affect prostate carcinoma cells attachment and invasion. Prostate 47:239\u2013251","journal-title":"Prostate"},{"key":"3492_CR94","doi-asserted-by":"publisher","first-page":"75","DOI":"10.1038\/83567","volume":"19","author":"S Rondot","year":"2001","unstructured":"Rondot S, Koch J, Breitling F, D\u00fcbel S (2001) A helper phage to improve single-chain antibody presentation in phage display. Nat Biotechnol 19:75\u201378","journal-title":"Nat Biotechnol"},{"key":"3492_CR95","doi-asserted-by":"crossref","unstructured":"Ryvkin A, Ashkenazy H, Smelyanski L, Kaplan G, Penn O, Weiss-Ottolenghi Y, Privman E, Ngam PB, Woodward JE, May GD (2012) Deep panning: steps towards probing the IgOme.","DOI":"10.1371\/journal.pone.0041469"},{"key":"3492_CR96","doi-asserted-by":"publisher","first-page":"605","DOI":"10.1016\/j.bbrc.2017.01.147","volume":"484","author":"K Sakamoto","year":"2017","unstructured":"Sakamoto K, Kamada Y, Sameshima T, Yaguchi M, Niida A, Sasaki S, Miwa M, Ohkubo S, Sakamoto J-I, Kamaura M (2017) K-Ras (G12D)-selective inhibitory peptides generated by random peptide T7 phage display technology. Biochem Biophys Res Commun 484:605\u2013611","journal-title":"Biochem Biophys Res Commun"},{"key":"3492_CR97","doi-asserted-by":"publisher","first-page":"787","DOI":"10.1007\/s13238-019-0639-7","volume":"10","author":"PE Saw","year":"2019","unstructured":"Saw PE, Song E-W (2019) Phage display screening of therapeutic peptide for cancer targeting and therapy. Protein Cell 10:787\u2013807","journal-title":"Protein Cell"},{"key":"3492_CR98","doi-asserted-by":"publisher","first-page":"386","DOI":"10.1126\/science.1696028","volume":"249","author":"JK Scott","year":"1990","unstructured":"Scott JK, Smith GP (1990) Searching for peptide ligands with an epitope library. Science 249:386\u2013390","journal-title":"Science"},{"key":"3492_CR99","doi-asserted-by":"publisher","first-page":"10590","DOI":"10.3390\/cimb46090627","volume":"46","author":"DK Sell","year":"2024","unstructured":"Sell DK, Bakhshinejad B, Sinkjaer AW, Dawoodi IM, Wiinholt MN, Sloth AB, Stavnsbjerg C, Kjaer A (2024) Using NGS to uncover the corruption of a peptide phage display selection. Curr Issues Mol Biol 46:10590\u201310605","journal-title":"Curr Issues Mol Biol"},{"key":"3492_CR100","doi-asserted-by":"publisher","first-page":"441","DOI":"10.3390\/biomedicines10020441","volume":"10","author":"M Sevenich","year":"2022","unstructured":"Sevenich M, Thul E, Lakomek N-A, Kluenemann T, Schubert M, Bertoglio F, Van Den Heuvel J, Petzsch P, Mohrlueder J, Willbold D (2022) Phage display-derived compounds displace hACE2 from its complex with SARS-CoV-2 Spike protein. Biomedicines 10:441","journal-title":"Biomedicines"},{"key":"3492_CR101","doi-asserted-by":"publisher","first-page":"280","DOI":"10.1186\/1471-2105-8-280","volume":"8","author":"T Shtatland","year":"2007","unstructured":"Shtatland T, Guettler D, Kossodo M, Pivovarov M, Weissleder R (2007) PepBank-a database of peptides based on sequence text mining and public peptide data sources. BMC Bioinformatics 8:280","journal-title":"BMC Bioinformatics"},{"key":"3492_CR102","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/s12985-024-02600-x","volume":"22","author":"AW Sinkjaer","year":"2025","unstructured":"Sinkjaer AW, Sloth AB, Andersen AO, Jensen M, Bakhshinejad B, Kjaer A (2025) A comparative analysis of sequence composition in different lots of a phage display peptide library during amplification. Virol J 22:1\u201316","journal-title":"Virol J"},{"key":"3492_CR103","doi-asserted-by":"publisher","first-page":"286","DOI":"10.1007\/s12033-019-00156-8","volume":"61","author":"M Sioud","year":"2019","unstructured":"Sioud M (2019) Phage display libraries: from binders to targeted drug delivery and human therapeutics. Mol Biotechnol 61:286\u2013303","journal-title":"Mol Biotechnol"},{"key":"3492_CR104","doi-asserted-by":"publisher","first-page":"2402","DOI":"10.3390\/v14112402","volume":"14","author":"AB Sloth","year":"2022","unstructured":"Sloth AB, Bakhshinejad B, Jensen M, Stavnsbjerg C, Liisberg MB, Rossing M, Kjaer A (2022) Analysis of compositional bias in a commercial phage display peptide library by next-generation sequencing. Viruses 14:2402","journal-title":"Viruses"},{"key":"3492_CR105","doi-asserted-by":"publisher","DOI":"10.3390\/ijms24065396","volume":"24","author":"AB Sloth","year":"2023","unstructured":"Sloth AB, Bakhshinejad B, Stavnsbjerg C, Rossing M, Kjaer A (2023) Depth of sequencing plays a determining role in the characterization of phage display peptide libraries by NGS. Int J Mol Sci 24:5396","journal-title":"Int J Mol Sci"},{"key":"3492_CR106","doi-asserted-by":"publisher","first-page":"1315","DOI":"10.1126\/science.4001944","volume":"228","author":"GP Smith","year":"1985","unstructured":"Smith GP (1985) Filamentous fusion phage: novel expression vectors that display cloned antigens on the virion surface. Science 228:1315\u20131317","journal-title":"Science"},{"key":"3492_CR107","doi-asserted-by":"crossref","unstructured":"Smith GP (2024) Principles of affinity selection. Cold Spring Harbor Protocols 2024, pdb. over107894","DOI":"10.1101\/pdb.over107894"},{"key":"3492_CR108","doi-asserted-by":"publisher","first-page":"391","DOI":"10.1021\/cr960065d","volume":"97","author":"GP Smith","year":"1997","unstructured":"Smith GP, Petrenko VA (1997) Phage display. Chem Rev 97:391\u2013410","journal-title":"Chem Rev"},{"key":"3492_CR109","first-page":"228","volume-title":"Methods in enzymology","author":"GP Smith","year":"1993","unstructured":"Smith GP, Scott JK (1993) Libraries of peptides and proteins displayed on filamentous phage. Methods in enzymology. Elsevier, Amsterdam, pp 228\u2013257"},{"key":"3492_CR110","doi-asserted-by":"publisher","first-page":"2","DOI":"10.1007\/BF01718693","volume":"2","author":"GP Smith","year":"1996","unstructured":"Smith GP, Yu J (1996) In search of dark horses: affinity maturation of phage-displayed ligands. Mol Diversity 2:2\u20134","journal-title":"Mol Diversity"},{"key":"3492_CR111","doi-asserted-by":"publisher","first-page":"1071","DOI":"10.1007\/s00216-017-0664-4","volume":"410","author":"Y Tan","year":"2018","unstructured":"Tan Y, Liu W, Zhu Z, Lang L, Wang J, Huang M, Zhang M, Yang C (2018) Selection and identification of transferrin receptor-specific peptides as recognition probes for cancer cells. Anal Bioanal Chem 410:1071\u20131077","journal-title":"Anal Bioanal Chem"},{"key":"3492_CR112","doi-asserted-by":"publisher","first-page":"35","DOI":"10.1016\/B978-0-12-396962-0.00002-1","volume":"503","author":"T Teesalu","year":"2012","unstructured":"Teesalu T, Sugahara KN, Ruoslahti E (2012) Mapping of vascular ZIP codes by phage display. Methods Enzymol 503:35\u201356","journal-title":"Methods Enzymol"},{"key":"3492_CR113","first-page":"15512","volume":"40","author":"V Thota","year":"2024","unstructured":"Thota V, Puddu V, Perry CC (2024) Phage display panning on silica: optimization of elution conditions for selection of strong binders. Langmuir 40:15512\u201315519","journal-title":"Langmuir"},{"key":"3492_CR114","doi-asserted-by":"publisher","first-page":"125","DOI":"10.1093\/bfgp\/elr010","volume":"10","author":"CG Ullman","year":"2011","unstructured":"Ullman CG, Frigotto L, Cooley RN (2011) In vitro methods for peptide display and their applications. Brief Funct Genomics 10:125\u2013134","journal-title":"Brief Funct Genomics"},{"key":"3492_CR115","doi-asserted-by":"publisher","first-page":"200","DOI":"10.1093\/nar\/30.1.200","volume":"30","author":"VP Valuev","year":"2002","unstructured":"Valuev VP, Afonnikov DA, Ponomarenko MP, Milanesi L, Kolchanov NA (2002) ASPD (Artificially selected Proteins\/Peptides Database): a database of proteins and peptides evolved in vitro. Nucleic Acids Res 30:200\u2013202","journal-title":"Nucleic Acids Res"},{"key":"3492_CR116","doi-asserted-by":"publisher","first-page":"1160","DOI":"10.3389\/fphys.2019.01160","volume":"10","author":"A Vekris","year":"2019","unstructured":"Vekris A, Pilalis E, Chatziioannou A, Petry KG (2019) A computational pipeline for the extraction of actionable biological information from NGS-phage display experiments. Front Physiol 10:1160","journal-title":"Front Physiol"},{"key":"3492_CR117","doi-asserted-by":"publisher","first-page":"790","DOI":"10.3390\/molecules16010790","volume":"16","author":"M Vodnik","year":"2011","unstructured":"Vodnik M, Zager U, Strukelj B, Lunder M (2011) Phage display: selecting straws instead of a needle from a haystack. Molecules 16:790\u2013817","journal-title":"Molecules"},{"key":"3492_CR118","doi-asserted-by":"publisher","first-page":"2093","DOI":"10.3892\/or.2014.3065","volume":"31","author":"D Wang","year":"2014","unstructured":"Wang D, Li W, Zhang H, Mao Q, Xia H (2014) A targeting peptide improves adenovirus-mediated transduction of a glioblastoma cell line. Oncol Rep 31:2093\u20132098","journal-title":"Oncol Rep"},{"key":"3492_CR119","doi-asserted-by":"publisher","DOI":"10.1002\/chem.202302261","volume":"29","author":"S Wang","year":"2023","unstructured":"Wang S, Uchida N, Ueno K, Matsubara T, Sato T, Aida T, Ishida Y (2023) Effects of the magnetic orientation of M13 bacteriophage on phage display selection. Chem Eur J 29:e202302261","journal-title":"Chem Eur J"},{"key":"3492_CR120","doi-asserted-by":"publisher","first-page":"2844","DOI":"10.1073\/pnas.75.6.2844","volume":"75","author":"L Wysocki","year":"1978","unstructured":"Wysocki L, Sato V (1978) Panning for lymphocytes: a method for cell selection. Proc Natl Acad Sci 75:2844\u20132848","journal-title":"Proc Natl Acad Sci"},{"key":"3492_CR121","doi-asserted-by":"publisher","DOI":"10.1016\/j.trac.2021.116229","volume":"137","author":"P Xu","year":"2021","unstructured":"Xu P, Ghosh S, Gul AR, Bhamore JR, Park JP, Park TJ (2021) Screening of specific binding peptides using phage-display techniques and their biosensing applications. TrAC Trends in Analytical Chemistry 137:116229","journal-title":"TrAC Trends in Analytical Chemistry"},{"key":"3492_CR122","doi-asserted-by":"publisher","first-page":"177","DOI":"10.1016\/j.bbrc.2021.02.142","volume":"550","author":"K Yoshioka","year":"2021","unstructured":"Yoshioka K, Yamashita H, Shimizu K, Shimomura S, Shibata T, Miyazaki J-I, Honda H (2021) Screening of a novel free fatty acid receptor 1 (FFAR1) agonist peptide by phage display and machine learning based-amino acid substitution. Biochem Biophys Res Commun 550:177\u2013183","journal-title":"Biochem Biophys Res Commun"},{"key":"3492_CR123","first-page":"3","volume-title":"Methods in enzymology","author":"J Yu","year":"1996","unstructured":"Yu J, Smith GP (1996) Affinity maturation of phage-displayed peptide ligands. Methods in enzymology. Elsevier, Amsterdam, pp 3\u201327"},{"key":"3492_CR124","doi-asserted-by":"publisher","first-page":"88","DOI":"10.1016\/j.jbiotec.2018.11.020","volume":"289","author":"S Yun","year":"2019","unstructured":"Yun S, Lee S, Park JP, Choo J, Lee E (2019) Modification of phage display technique for improved screening of high-affinity binding peptides. J Biotechnol 289:88\u201392","journal-title":"J Biotechnol"},{"key":"3492_CR125","doi-asserted-by":"publisher","first-page":"1293","DOI":"10.1007\/s00726-017-2452-z","volume":"49","author":"HM Zade","year":"2017","unstructured":"Zade HM, Keshavarz R, Shekarabi HSZ, Bakhshinejad B (2017) Biased selection of propagation-related tups from phage display peptide libraries. Amino Acids 49:1293\u20131308","journal-title":"Amino Acids"},{"key":"3492_CR126","doi-asserted-by":"publisher","first-page":"308","DOI":"10.1007\/s43441-019-00059-5","volume":"54","author":"MS Zambrano-Mila","year":"2020","unstructured":"Zambrano-Mila MS, Blacio KES, Vispo NS (2020) Peptide phage display: molecular principles and biomedical applications. Ther Innov Regul Sci 54:308\u2013317","journal-title":"Ther Innov Regul Sci"},{"key":"3492_CR127","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1186\/1749-8090-9-76","volume":"9","author":"Z-F Zhang","year":"2014","unstructured":"Zhang Z-F, Shan X, Wang Y-X, Wang W, Feng S-Y, Cui Y-B (2014) Screening and selection of peptides specific for esophageal cancer cells from a phage display peptide library. J Cardiothorac Surg 9:1\u20137","journal-title":"J Cardiothorac Surg"},{"key":"3492_CR128","doi-asserted-by":"publisher","first-page":"2041","DOI":"10.7150\/thno.68636","volume":"12","author":"X Zhang","year":"2022","unstructured":"Zhang X, Zhang X, Gao H, Qing G (2022) Phage display derived peptides for Alzheimer\u2019s disease therapy and diagnosis. Theranostics 12:2041","journal-title":"Theranostics"},{"key":"3492_CR129","doi-asserted-by":"publisher","first-page":"639","DOI":"10.1002\/psc.2542","volume":"19","author":"H Zhao","year":"2013","unstructured":"Zhao H, Feng X, Han W, Diao Y, Han D, Tian X, Gao Y, Liu S, Zhu S, Yao C (2013) Enhanced binding to and killing of hepatocellular carcinoma cells in vitro by Melittin when linked with a novel targeting peptide screened from phage display. J Pept Sci 19:639\u2013650","journal-title":"J Pept Sci"},{"key":"3492_CR130","doi-asserted-by":"publisher","first-page":"474","DOI":"10.1016\/S1389-1723(01)80276-0","volume":"91","author":"G Zhuang","year":"2001","unstructured":"Zhuang G, Katakura Y, Furuta T, Omasa T, Kishimoto M, Suga K-I (2001) A kinetic model for a biopanning process considering antigen desorption and effective antigen concentration on a solid phase. J Biosci Bioeng 91:474\u2013481","journal-title":"J Biosci Bioeng"}],"container-title":["Amino Acids"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/article\/10.1007\/s00726-025-03492-z","content-type":"text\/html","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s00726-025-03492-z.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/s00726-025-03492-z.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,1,6]],"date-time":"2026-01-06T17:03:10Z","timestamp":1767718990000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/s00726-025-03492-z"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,12,26]]},"references-count":130,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2026,12]]}},"alternative-id":["3492"],"URL":"https:\/\/doi.org\/10.1007\/s00726-025-03492-z","relation":{},"ISSN":["1438-2199"],"issn-type":[{"value":"1438-2199","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,12,26]]},"assertion":[{"value":"9 September 2025","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"11 November 2025","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"26 December 2025","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}},{"order":1,"name":"Ethics","group":{"name":"EthicsHeading","label":"Declarations"}},{"value":"The authors declare no competing interests.","order":2,"name":"Ethics","group":{"name":"EthicsHeading","label":"Competing interests"}},{"value":"NGS-based phage display and peptide discovery.","order":3,"name":"Ethics","group":{"name":"EthicsHeading","label":"Running title"}}],"article-number":"5"}}