{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,7]],"date-time":"2026-03-07T19:39:22Z","timestamp":1772912362626,"version":"3.50.1"},"reference-count":53,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2018,3,28]],"date-time":"2018-03-28T00:00:00Z","timestamp":1522195200000},"content-version":"vor","delay-in-days":86,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["61571095"],"award-info":[{"award-number":["61571095"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018,1,1]]},"abstract":"<jats:title>Abstract<\/jats:title><jats:p>The 2018 update of the biopanning data bank (BDB) stores phage display data sequenced by Sanger sequencing and next generation sequencing technologies. In this work, we upgraded the database with more biopanning data sets and several new features, including (i) incorporation of next generation biopanning data and the unselected population where the target is not determined and the round of screening is zero; (ii) addition of sequencing information; (iii) improvement of browsing and searching systems and 3\u2009D chemical structure viewer; (iv) integration of standalone tools for target-unrelated peptides analysis within conventional phage display and next generation phage display (NGPD) data. In the current version of BDB (released on 19 January 2018), the database houses 3291 sets of biopanning data collected from 1540 published articles, including 95 NGPD data sets and 3196 traditional biopanning data sets. The BDB database serves as an important and comprehensive resource for developing peptide ligands.<\/jats:p><jats:p>Database URL: The BDB database is available at http:\/\/immunet.cn\/bdb<\/jats:p>","DOI":"10.1093\/database\/bay032","type":"journal-article","created":{"date-parts":[[2018,3,10]],"date-time":"2018-03-10T12:07:53Z","timestamp":1520683673000},"source":"Crossref","is-referenced-by-count":24,"title":["Biopanning data bank 2018: hugging next generation phage display"],"prefix":"10.1093","volume":"2018","author":[{"given":"Bifang","family":"He","sequence":"first","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, No. 2006, Xiyuan Ave, West Hi-Tech Zone, Chengdu 611731, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lixu","family":"Jiang","sequence":"first","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, No. 2006, Xiyuan Ave, West Hi-Tech Zone, Chengdu 611731, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yaocong","family":"Duan","sequence":"first","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, No. 2006, Xiyuan Ave, West Hi-Tech Zone, Chengdu 611731, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Guoshi","family":"Chai","sequence":"first","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, No. 2006, Xiyuan Ave, West Hi-Tech Zone, Chengdu 611731, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yewei","family":"Fang","sequence":"first","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, No. 2006, Xiyuan Ave, West Hi-Tech Zone, Chengdu 611731, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Juanjuan","family":"Kang","sequence":"first","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, No. 2006, Xiyuan Ave, West Hi-Tech Zone, Chengdu 611731, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Min","family":"Yu","sequence":"first","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, No. 2006, Xiyuan Ave, West Hi-Tech Zone, Chengdu 611731, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ning","family":"Li","sequence":"first","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, No. 2006, Xiyuan Ave, West Hi-Tech Zone, Chengdu 611731, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zhongjie","family":"Tang","sequence":"first","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, No. 2006, Xiyuan Ave, West Hi-Tech Zone, Chengdu 611731, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Pengcheng","family":"Yao","sequence":"first","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, No. 2006, Xiyuan Ave, West Hi-Tech Zone, Chengdu 611731, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Pengcheng","family":"Wu","sequence":"first","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, No. 2006, Xiyuan Ave, West Hi-Tech Zone, Chengdu 611731, China"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ratmir","family":"Derda","sequence":"first","affiliation":[{"name":"Department of Chemistry, University of Alberta, 11227 Saskatchewan Drive, Edmonton, AB T6G 2G2, Canada"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jian","family":"Huang","sequence":"first","affiliation":[{"name":"Center for Informational Biology, University of Electronic Science and Technology of China, No. 2006, Xiyuan Ave, West Hi-Tech Zone, Chengdu 611731, China"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2018,3,27]]},"reference":[{"key":"2020050806181040600_bay032-B1","doi-asserted-by":"crossref","first-page":"4342","DOI":"10.1093\/nar\/gkv185","article-title":"Selective inhibition of miR-21 by phage display screened peptide","volume":"43","author":"Bose","year":"2015","journal-title":"Nucleic Acids Res"},{"key":"2020050806181040600_bay032-B2","first-page":"1","article-title":"Epitope mapping of metuximab on CD147 using phage display and molecular docking","volume":"2013","author":"He","year":"2013","journal-title":"Comput. Math. Methods Med"},{"key":"2020050806181040600_bay032-B3","doi-asserted-by":"crossref","first-page":"17010.","DOI":"10.1038\/sigtrans.2017.10","article-title":"A novel peptide specifically binding to VEGF receptor suppresses angiogenesis in vitro and in vivo","volume":"2","author":"Zhang","year":"2017","journal-title":"Signal Transduct. Target. Ther"},{"key":"2020050806181040600_bay032-B4","doi-asserted-by":"crossref","first-page":"40","DOI":"10.1016\/j.jbiotec.2016.05.027","article-title":"A high affinity phage-displayed peptide as a recognition probe for the detection of Salmonella typhimurium","volume":"231","author":"Agrawal","year":"2016","journal-title":"J Biotechnol"},{"key":"2020050806181040600_bay032-B5","doi-asserted-by":"crossref","first-page":"1020","DOI":"10.1021\/cr400166n","article-title":"Combinatorial peptide libraries: mining for cell-binding peptides","volume":"114","author":"Gray","year":"2014","journal-title":"Chem. Rev"},{"key":"2020050806181040600_bay032-B6","doi-asserted-by":"crossref","first-page":"12857","DOI":"10.1073\/pnas.1103569108","article-title":"Peptides targeting inflamed synovial vasculature attenuate autoimmune arthritis","volume":"108","author":"Yang","year":"2011","journal-title":"Proc Natl Acad Sci USA"},{"key":"2020050806181040600_bay032-B7","doi-asserted-by":"crossref","first-page":"849","DOI":"10.1016\/j.biotechadv.2010.07.004","article-title":"Phage display: concept, innovations, applications and future","volume":"28","author":"Pande","year":"2010","journal-title":"Biotechnol. Adv"},{"key":"2020050806181040600_bay032-B8","doi-asserted-by":"crossref","first-page":"2367","DOI":"10.2174\/0929867321666140217122100","article-title":"Tumor homing peptides as molecular probes for cancer therapeutics, diagnostics and theranostics","volume":"21","author":"Gautam","year":"2014","journal-title":"Curr. Med. Chem"},{"key":"2020050806181040600_bay032-B9","article-title":"Tumor-targeting peptides from combinatorial libraries","volume":"110\u2013111","author":"Liu","year":"2016","journal-title":"Adv. Drug. Deliv. Rev"},{"key":"2020050806181040600_bay032-B10","doi-asserted-by":"crossref","first-page":"12747","DOI":"10.1039\/c1cc15634a","article-title":"20 years of DNA-encoded chemical libraries","volume":"47","author":"Mannocci","year":"2011","journal-title":"Chem. Commun. (Camb)"},{"key":"2020050806181040600_bay032-B11","doi-asserted-by":"crossref","first-page":"1051","DOI":"10.1126\/science.1171541","article-title":"Fabricating genetically engineered high-power lithium-ion batteries using multiple virus genes","volume":"324","author":"Lee","year":"2009","journal-title":"Science"},{"key":"2020050806181040600_bay032-B12","doi-asserted-by":"crossref","first-page":"1784","DOI":"10.1093\/nar\/gkt1104","article-title":"Prospective identification of parasitic sequences in phage display screens","volume":"42","author":"Matochko","year":"2014","journal-title":"Nucleic Acids Res"},{"key":"2020050806181040600_bay032-B13","doi-asserted-by":"crossref","first-page":"790","DOI":"10.3390\/molecules16010790","article-title":"Phage display: selecting straws instead of a needle from a haystack","volume":"16","author":"Vodnik","year":"2011","journal-title":"Molecules"},{"key":"2020050806181040600_bay032-B14","doi-asserted-by":"crossref","first-page":"237","DOI":"10.1016\/j.ab.2010.07.037","article-title":"Corruption of phage display libraries by target-unrelated clones: diagnosis and countermeasures","volume":"407","author":"Thomas","year":"2010","journal-title":"Anal. Biochem"},{"key":"2020050806181040600_bay032-B15","doi-asserted-by":"crossref","first-page":"83","DOI":"10.1016\/j.ab.2012.02.013","article-title":"HWGMWSY, an unanticipated polystyrene binding peptide from random phage display libraries","volume":"424","author":"Vodnik","year":"2012","journal-title":"Anal. Biochem"},{"key":"2020050806181040600_bay032-B16","doi-asserted-by":"crossref","first-page":"35","DOI":"10.1016\/j.ab.2014.06.007","article-title":"Identification and characterization of mutant clones with enhanced propagation rates from phage-displayed peptide libraries","volume":"462","author":"Nguyen","year":"2014","journal-title":"Anal. Biochem"},{"key":"2020050806181040600_bay032-B17","doi-asserted-by":"crossref","first-page":"e0176421","DOI":"10.1371\/journal.pone.0176421","article-title":"Various mutations compensate for a deleterious lacZalpha insert in the replication enhancer of M13 bacteriophage","volume":"12","author":"Zygiel","year":"2017","journal-title":"PLoS One"},{"key":"2020050806181040600_bay032-B18","doi-asserted-by":"crossref","first-page":"88","DOI":"10.1016\/j.ab.2007.10.015","article-title":"A target-unrelated peptide in an M13 phage display library traced to an advantageous mutation in the gene II ribosome-binding site","volume":"373","author":"Brammer","year":"2008","journal-title":"Anal. Biochem"},{"key":"2020050806181040600_bay032-B19","doi-asserted-by":"crossref","first-page":"e169","DOI":"10.1093\/nar\/gku940","article-title":"Identification of target-binding peptide motifs by high-throughput sequencing of phage-selected peptides","volume":"42","author":"Rentero Rebollo","year":"2014","journal-title":"Nucleic Acids Res"},{"key":"2020050806181040600_bay032-B20","doi-asserted-by":"crossref","first-page":"e41469.","DOI":"10.1371\/journal.pone.0041469","article-title":"Deep panning: steps towards probing the IgOme","volume":"7","author":"Ryvkin","year":"2012","journal-title":"PLoS One"},{"key":"2020050806181040600_bay032-B21","doi-asserted-by":"crossref","first-page":"e77844.","DOI":"10.1371\/journal.pone.0077844","article-title":"High-throughput sequencing enhanced phage display identifies peptides that bind mycobacteria","volume":"8","author":"Ngubane","year":"2013","journal-title":"PLoS One"},{"key":"2020050806181040600_bay032-B22","doi-asserted-by":"crossref","first-page":"99","DOI":"10.1016\/j.ymeth.2013.03.001","article-title":"Deep sequencing of phage display libraries to support antibody discovery","volume":"60","author":"Ravn","year":"2013","journal-title":"Methods"},{"key":"2020050806181040600_bay032-B23","doi-asserted-by":"crossref","first-page":"18637","DOI":"10.1073\/pnas.1114503108","article-title":"Vascular ligand-receptor mapping by direct combinatorial selection in cancer patients","volume":"108","author":"Staquicini","year":"2011","journal-title":"Proc. Natl. Acad. Sci. USA"},{"key":"2020050806181040600_bay032-B24","doi-asserted-by":"crossref","first-page":"622","DOI":"10.1016\/j.ab.2011.11.005","article-title":"Phage display screening without repetitious selection rounds","volume":"421","author":"t Hoen","year":"2012","journal-title":"Anal. Biochem"},{"key":"2020050806181040600_bay032-B25","doi-asserted-by":"crossref","first-page":"12449","DOI":"10.1002\/anie.201207005","article-title":"Single-round, multiplexed antibody mimetic design through mRNA display","volume":"51","author":"Olson","year":"2012","journal-title":"Angew. Chem. Int. Ed. Engl"},{"key":"2020050806181040600_bay032-B26","doi-asserted-by":"crossref","first-page":"1513","DOI":"10.1016\/j.jmb.2014.09.020","article-title":"Precise and efficient antibody epitope determination through library design, yeast display and next-generation sequencing","volume":"427","author":"Van Blarcom","year":"2015","journal-title":"J. Mol. Biol"},{"key":"2020050806181040600_bay032-B27","doi-asserted-by":"crossref","first-page":"e29604.","DOI":"10.1371\/journal.pone.0029604","article-title":"Probing the SELEX process with next-generation sequencing","volume":"6","author":"Schutze","year":"2011","journal-title":"PLoS One"},{"key":"2020050806181040600_bay032-B28","doi-asserted-by":"crossref","first-page":"5248","DOI":"10.1021\/ja511237n","article-title":"Genetically encoded fragment-based discovery of glycopeptide ligands for carbohydrate-binding proteins","volume":"137","author":"Ng","year":"2015","journal-title":"J. Am. Chem. Soc"},{"key":"2020050806181040600_bay032-B29","doi-asserted-by":"crossref","first-page":"200","DOI":"10.1093\/nar\/30.1.200","article-title":"ASPD (artificially selected proteins\/peptides database): a database of proteins and peptides evolved in vitro","volume":"30","author":"Valuev","year":"2002","journal-title":"Nucleic Acids Res"},{"key":"2020050806181040600_bay032-B30","doi-asserted-by":"crossref","first-page":"8279","DOI":"10.3390\/molecules15118279","article-title":"MimoDB: a new repository for mimotope data derived from phage display technology","volume":"15","author":"Ru","year":"2010","journal-title":"Molecules"},{"key":"2020050806181040600_bay032-B31","doi-asserted-by":"crossref","first-page":"D271","DOI":"10.1093\/nar\/gkr922","article-title":"MimoDB 2.0: a mimotope database and beyond","volume":"40","author":"Huang","year":"2012","journal-title":"Nucleic Acids Res"},{"key":"2020050806181040600_bay032-B32","doi-asserted-by":"crossref","first-page":"D1127","DOI":"10.1093\/nar\/gkv1100","article-title":"BDB: biopanning data bank","volume":"44","author":"He","year":"2016","journal-title":"Nucleic Acids Res"},{"key":"2020050806181040600_bay032-B33","doi-asserted-by":"crossref","first-page":"280.","DOI":"10.1186\/1471-2105-8-280","article-title":"PepBank\u2014a database of peptides based on sequence text mining and public peptide data sources","volume":"8","author":"Shtatland","year":"2007","journal-title":"BMC Bioinformatics"},{"key":"2020050806181040600_bay032-B34","doi-asserted-by":"crossref","first-page":"278.","DOI":"10.3389\/fimmu.2017.00278","article-title":"The immune epitope database and analysis resource in epitope discovery and synthetic vaccine design","volume":"8","author":"Fleri","year":"2017","journal-title":"Front. Immunol"},{"key":"2020050806181040600_bay032-B35","doi-asserted-by":"crossref","first-page":"e35187.","DOI":"10.1371\/journal.pone.0035187","article-title":"TumorHoPe: a database of tumor homing peptides","volume":"7","author":"Kapoor","year":"2012","journal-title":"PLoS One"},{"key":"2020050806181040600_bay032-B36","first-page":"1","article-title":"SAROTUP: scanner and reporter of target-unrelated peptides","volume":"2010","author":"Huang","year":"2010","journal-title":"J. Biomed. Biotechnol"},{"key":"2020050806181040600_bay032-B37","doi-asserted-by":"crossref","first-page":"1450005","DOI":"10.1142\/S021972001450005X","article-title":"PhD7Faster: predicting clones propagating faster from the Ph.D.-7 phage display peptide library","volume":"12","author":"Ru","year":"2014","journal-title":"J. Bioinform. Comput. Biol"},{"key":"2020050806181040600_bay032-B38","doi-asserted-by":"crossref","first-page":"9175143.","DOI":"10.1155\/2016\/9175143","article-title":"SABinder: a web service for predicting streptavidin-binding peptides","volume":"2016","author":"He","year":"2016","journal-title":"Biomed. Res. Int"},{"key":"2020050806181040600_bay032-B39","doi-asserted-by":"crossref","first-page":"BBI.S2745","DOI":"10.4137\/BBI.S2745","article-title":"Automated detection of conformational epitopes using phage display peptide sequences","volume":"3","author":"Negi","year":"2009","journal-title":"Bioinform. Biol. Insights"},{"key":"2020050806181040600_bay032-B40","doi-asserted-by":"crossref","first-page":"451.","DOI":"10.1186\/1471-2105-7-451","article-title":"MIMOX: a web tool for phage display based epitope mapping","volume":"7","author":"Huang","year":"2006","journal-title":"BMC Bioinformatics"},{"key":"2020050806181040600_bay032-B41","doi-asserted-by":"crossref","first-page":"47","DOI":"10.1016\/j.ymeth.2012.07.006","article-title":"Deep sequencing analysis of phage libraries using Illumina platform","volume":"58","author":"Matochko","year":"2012","journal-title":"Methods"},{"key":"2020050806181040600_bay032-B42","doi-asserted-by":"crossref","first-page":"1214.","DOI":"10.1038\/s41598-018-19439-2","article-title":"Compositional bias in naive and chemically-modified phage-displayed libraries uncovered by paired-end deep sequencing","volume":"8","author":"He","year":"2018","journal-title":"Sci. Rep"},{"key":"2020050806181040600_bay032-B43","doi-asserted-by":"crossref","first-page":"e47.","DOI":"10.1093\/nar\/gkr1294","article-title":"MUSI: an integrated system for identifying multiple specificity from very large peptide or nucleic acid data sets","volume":"40","author":"Kim","year":"2012","journal-title":"Nucleic Acids Res"},{"key":"2020050806181040600_bay032-B44","doi-asserted-by":"crossref","first-page":"9","DOI":"10.1093\/bioinformatics\/btv522","article-title":"Hammock: a hidden Markov model-based peptide clustering algorithm to identify protein-interaction consensus motifs in large datasets","volume":"32","author":"Krejci","year":"2016","journal-title":"Bioinformatics"},{"key":"2020050806181040600_bay032-B45","doi-asserted-by":"crossref","first-page":"e230.","DOI":"10.1038\/mtna.2015.4","article-title":"FASTAptamer: a bioinformatic toolkit for high-throughput sequence analysis of combinatorial selections","volume":"4","author":"Alam","year":"2015","journal-title":"Mol. Ther. Nucl. Acids"},{"key":"2020050806181040600_bay032-B46","doi-asserted-by":"crossref","first-page":"150.","DOI":"10.1186\/s13059-017-1272-5","article-title":"A statistical framework for analyzing deep mutational scanning data","volume":"18","author":"Rubin","year":"2017","journal-title":"Genome Biol"},{"key":"2020050806181040600_bay032-B47","doi-asserted-by":"crossref","first-page":"e0155244.","DOI":"10.1371\/journal.pone.0155244","article-title":"PHASTpep: analysis software for discovery of cell-selective peptides via phage display and next-generation sequencing","volume":"11","author":"Brinton","year":"2016","journal-title":"PLoS One"},{"key":"2020050806181040600_bay032-B48","first-page":"D271","article-title":"The RCSB protein data bank: integrative view of protein, gene and 3D structural information","volume":"45","author":"Rose","year":"2017","journal-title":"Nucleic Acids Res"},{"key":"2020050806181040600_bay032-B49","doi-asserted-by":"crossref","first-page":"79","DOI":"10.1038\/bjc.2017.366","article-title":"Identification of a specific peptide binding to colon cancer cells from a phage-displayed peptide library","volume":"118","author":"Hou","year":"2017","journal-title":"Br. J. Cancer"},{"key":"2020050806181040600_bay032-B50","doi-asserted-by":"crossref","first-page":"12913.","DOI":"10.1038\/srep12913","article-title":"High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum","volume":"5","author":"Christiansen","year":"2015","journal-title":"Sci. Rep"},{"key":"2020050806181040600_bay032-B51","doi-asserted-by":"crossref","first-page":"1811","DOI":"10.1021\/acs.bioconjchem.5b00344","article-title":"Efficient identification of murine M2 macrophage peptide targeting ligands by phage display and next-generation sequencing","volume":"26","author":"Liu","year":"2015","journal-title":"Bioconjug. Chem"},{"key":"2020050806181040600_bay032-B52","doi-asserted-by":"crossref","first-page":"308","DOI":"10.1038\/cmi.2015.83","article-title":"Screening and identification of mimotopes of the major shrimp allergen tropomyosin using one-bead-one-compound peptide libraries","volume":"14","author":"Leung","year":"2017","journal-title":"Cell Mol. Immunol"},{"key":"2020050806181040600_bay032-B53","first-page":"1","article-title":"PSBinder: a web service for predicting polystyrene surface-binding peptides","volume":"2017","author":"Li","year":"2017","journal-title":"Biomed. Res. Int"}],"container-title":["Database"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/database\/article-pdf\/doi\/10.1093\/database\/bay032\/33192756\/bay032.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"http:\/\/academic.oup.com\/database\/article-pdf\/doi\/10.1093\/database\/bay032\/33192756\/bay032.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,9,1]],"date-time":"2023-09-01T15:05:49Z","timestamp":1693580749000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/database\/article\/doi\/10.1093\/database\/bay032\/4955852"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018,1,1]]},"references-count":53,"URL":"https:\/\/doi.org\/10.1093\/database\/bay032","relation":{},"ISSN":["1758-0463"],"issn-type":[{"value":"1758-0463","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2018]]},"published":{"date-parts":[[2018,1,1]]},"article-number":"bay032"}}