{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,3,25]],"date-time":"2025-03-25T15:58:38Z","timestamp":1742918318039,"version":"3.40.3"},"publisher-location":"Cham","reference-count":21,"publisher":"Springer International Publishing","isbn-type":[{"type":"print","value":"9783319959290"},{"type":"electronic","value":"9783319959306"}],"license":[{"start":{"date-parts":[[2018,1,1]],"date-time":"2018-01-01T00:00:00Z","timestamp":1514764800000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/www.springer.com\/tdm"}],"content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2018]]},"DOI":"10.1007\/978-3-319-95930-6_89","type":"book-chapter","created":{"date-parts":[[2018,7,5]],"date-time":"2018-07-05T06:12:40Z","timestamp":1530771160000},"page":"888-892","update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Finding Potential RNA Aptamers for a Protein Target Using Sequence and Structure Features"],"prefix":"10.1007","author":[{"given":"Wook","family":"Lee","sequence":"first","affiliation":[]},{"given":"Jisu","family":"Lee","sequence":"additional","affiliation":[]},{"given":"Kyungsook","family":"Han","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2018,7,6]]},"reference":[{"issue":"4968","key":"89_CR1","doi-asserted-by":"publisher","first-page":"505","DOI":"10.1126\/science.2200121","volume":"249","author":"C Tuerk","year":"1990","unstructured":"Tuerk, C., Gold, L.: Systematic evolution of ligands by exponential enrichment: RNA ligands to bacteriophage T4 DNA polymerase. Science 249(4968), 505\u2013510 (1990)","journal-title":"Science"},{"issue":"2","key":"89_CR2","doi-asserted-by":"publisher","first-page":"349","DOI":"10.1021\/cr960009c","volume":"97","author":"SE Osborne","year":"1997","unstructured":"Osborne, S.E., Ellington, A.D.: Nucleic acid selection and the challenge of combinatorial chemistry. Chem. Rev. 97(2), 349\u2013370 (1997)","journal-title":"Chem. Rev."},{"issue":"12","key":"89_CR3","doi-asserted-by":"publisher","first-page":"e87","DOI":"10.1093\/nar\/gkp408","volume":"37","author":"Y Chushak","year":"2009","unstructured":"Chushak, Y., Stone, M.O.: In silico selection of RNA aptamers. Nucleic Acids Res. 37(12), e87 (2009)","journal-title":"Nucleic Acids Res."},{"issue":"1","key":"89_CR4","doi-asserted-by":"publisher","first-page":"e86729","DOI":"10.1371\/journal.pone.0086729","volume":"9","author":"BQ Li","year":"2014","unstructured":"Li, B.Q., Zhang, Y.C., Huang, G.H., Cui, W.R., Zhang, N., Cai, Y.D.: Prediction of aptamer-target interacting pairs with pseudo-amino acid composition. PLoS ONE 9(1), e86729 (2014)","journal-title":"PLoS ONE"},{"key":"89_CR5","doi-asserted-by":"publisher","first-page":"225","DOI":"10.1186\/s12859-016-1087-5","volume":"17","author":"L Zhang","year":"2016","unstructured":"Zhang, L., Zhang, C., Gao, R., Yang, R., Song, Q.: Prediction of aptamer-protein interacting pairs using an ensemble classifier in combination with various protein sequence attributes. BMC Bioinformatics 17, 225 (2016)","journal-title":"BMC Bioinformatics"},{"key":"89_CR6","first-page":"658712","volume":"2015","author":"WP Hu","year":"2015","unstructured":"Hu, W.P., Kumar, J.V., Huang, C.J., Chen, W.Y.: Computational selection of RNA aptamer against angiopoietin-2 and experimental evaluation. Biomed. Res. Int. 2015, 658712 (2015)","journal-title":"Biomed. Res. Int."},{"issue":"2","key":"89_CR7","doi-asserted-by":"publisher","first-page":"112","DOI":"10.1016\/j.jsb.2015.07.003","volume":"191","author":"DS Shcherbinin","year":"2015","unstructured":"Shcherbinin, D.S., Gnedenko, O.V., Khmeleva, S.A., Usanov, S.A., Gilep, A.A., Yantsevich, A.V., Shkel, T.V., Yushkevich, I.V., Radko, S.P., Ivanov, A.S., Veselovsky, A.V., Archakov, A.I.: Computer-aided design of aptamers for cytochrome p450. J. Struct. Biol. 191(2), 112\u2013119 (2015)","journal-title":"J. Struct. Biol."},{"key":"89_CR8","doi-asserted-by":"publisher","first-page":"21285","DOI":"10.1038\/srep21285","volume":"6","author":"R Ahirwar","year":"2016","unstructured":"Ahirwar, R., Nahar, S., Aggarwal, S., Ramachandran, S., Maiti, S., Nahar, P.: In silico selection of an aptamer to estrogen receptor alpha using computational docking employing estrogen response elements as aptamer-alike molecules. Sci. Rep. 6, 21285 (2016)","journal-title":"Sci. Rep."},{"key":"89_CR9","doi-asserted-by":"publisher","first-page":"e376","DOI":"10.1038\/mtna.2016.84","volume":"5","author":"O Rabal","year":"2016","unstructured":"Rabal, O., Pastor, F., Villanueva, H., Soldevilla, M.M., Hervas-Stubbs, S., Oyarzabal, J.: In silico aptamer docking studies: from a retrospective validation to a prospective case study-TIM3 aptamers binding. Mol. Therapy-Nucleic Acids 5, e376 (2016)","journal-title":"Mol. Therapy-Nucleic Acids"},{"key":"89_CR10","doi-asserted-by":"crossref","unstructured":"Cruz-Toledo, J., McKeague, M., Zhang, X., Giamberardino, A., McConnell, E., Francis, T., DeRosa, M.C., Dumontier, M.: Aptamer base: a collaborative knowledge base to describe aptamers and SELEX experiments. Database (Oxford) (2012)","DOI":"10.1093\/database\/bas006"},{"issue":"Suppl. 13","key":"89_CR11","doi-asserted-by":"publisher","first-page":"S7","DOI":"10.1186\/1471-2105-12-S13-S7","volume":"12","author":"S Choi","year":"2011","unstructured":"Choi, S., Han, K.: Prediction of RNA-binding amino acids from protein and RNA sequences. BMC Bioinformatics 12(Suppl. 13), S7 (2011)","journal-title":"BMC Bioinformatics"},{"issue":"11","key":"89_CR12","doi-asserted-by":"publisher","first-page":"1687","DOI":"10.1016\/j.compbiomed.2013.08.011","volume":"43","author":"S Choi","year":"2013","unstructured":"Choi, S., Han, K.: Predicting protein-binding RNA nucleotides using the feature-based removal of data redundancy and the interaction propensity of nucleotide triplets. Comput. Biol. Med. 43(11), 1687\u20131697 (2013)","journal-title":"Comput. Biol. Med."},{"issue":"1","key":"89_CR13","doi-asserted-by":"publisher","first-page":"3","DOI":"10.1016\/j.cmpb.2015.03.010","volume":"120","author":"N Tuvshinjargal","year":"2015","unstructured":"Tuvshinjargal, N., Lee, W., Park, B., Han, K.: Predicting protein-binding RNA nucleotides with consideration of binding partners. Comput. Methods Programs Biomed. 120(1), 3\u201315 (2015)","journal-title":"Comput. Methods Programs Biomed."},{"key":"89_CR14","doi-asserted-by":"publisher","first-page":"76","DOI":"10.1016\/j.ab.2014.06.022","volume":"462","author":"W Chen","year":"2014","unstructured":"Chen, W., Feng, P.M., Deng, E.Z., Lin, H., Chou, K.C.: iTIS-PseTNC: a sequence-based predictor for identifying translation initiation site in human genes using pseudo trinucleotide composition. Anal. Biochem. 462, 76\u201383 (2014)","journal-title":"Anal. Biochem."},{"issue":"19","key":"89_CR15","doi-asserted-by":"publisher","first-page":"8700","DOI":"10.1073\/pnas.92.19.8700","volume":"92","author":"I Dubchak","year":"1995","unstructured":"Dubchak, I., Muchnik, I., Holbrook, S.R., Kim, S.H.: Prediction of protein folding class using global description of amino acid sequence. Proc. Natl. Acad. Sci. U.S.A. 92(19), 8700\u20138704 (1995)","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"issue":"2","key":"89_CR16","doi-asserted-by":"publisher","first-page":"386","DOI":"10.1016\/j.ab.2007.10.012","volume":"373","author":"HB Shen","year":"2008","unstructured":"Shen, H.B., Chou, K.C.: PseAAC: a flexible web server for generating various kinds of protein pseudo amino acid composition. Anal. Biochem. 373(2), 386\u2013388 (2008)","journal-title":"Anal. Biochem."},{"key":"89_CR17","doi-asserted-by":"publisher","first-page":"20556","DOI":"10.1074\/jbc.273.32.20556","volume":"273","author":"J Ruckman","year":"1998","unstructured":"Ruckman, J., Green, L.S., Beeson, J., Waugh, S., Gillette, W.L., Henninger, D.D., Claesson-Welsh, L., Janjic, N.: 2\u2032-fluoropyrimidine rna-based aptamers to the 165-amino acid form of vascular endothelial growth factor (VEGF165). Inhibition of receptor binding and vegf-induced vascular permeability through interactions requiring the exon 7-encoded domain. J. Biol. Chem. 273, 20556\u201320567 (1998)","journal-title":"J. Biol. Chem."},{"key":"89_CR18","doi-asserted-by":"publisher","first-page":"688","DOI":"10.1006\/jmbi.1997.1275","volume":"272","author":"DM Tasset","year":"1997","unstructured":"Tasset, D.M., Kubik, M.F., Steiner, W.: Oligonucleotide inhibitors of human thrombin that bind distinct epitopes. J. Mol. Biol. 272, 688\u2013698 (1997)","journal-title":"J. Mol. Biol."},{"issue":"1","key":"89_CR19","doi-asserted-by":"publisher","first-page":"26","DOI":"10.1186\/1748-7188-6-26","volume":"6","author":"R Lorenz","year":"2011","unstructured":"Lorenz, R., Bernhart, S.H., Zu Siederdissen, C.H., Tafer, H., Flamm, C., Stadler, P.F., Hofacker, I.L.: ViennaRNA Package 2.0. Algorithms Mol. Biol. 6(1), 26 (2011)","journal-title":"Algorithms Mol. Biol."},{"issue":"W1","key":"89_CR20","doi-asserted-by":"publisher","first-page":"W365","DOI":"10.1093\/nar\/gkx407","volume":"45","author":"Y Yan","year":"2017","unstructured":"Yan, Y., Zhang, D., Zhou, P., Li, B., Huang, S.Y.: HDOCK: a web server for protein-protein and protein-DNA\/RNA docking based on a hybrid strategy. Nucleic Acids Res. 45(W1), W365\u2013W373 (2017)","journal-title":"Nucleic Acids Res."},{"issue":"14","key":"89_CR21","doi-asserted-by":"publisher","first-page":"e112","DOI":"10.1093\/nar\/gks339","volume":"40","author":"M Popenda","year":"2012","unstructured":"Popenda, M., Szachniuk, M., Antczak, M., Purzycka, K.J., Lukasiak, P., Bartol, N., Blazewicz, J., Adamiak, R.W.: Automated 3D structure composition for large RNAs. Nucleic Acids Res. 40(14), e112 (2012)","journal-title":"Nucleic Acids Res."}],"container-title":["Lecture Notes in Computer Science","Intelligent Computing Theories and Application"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1007\/978-3-319-95930-6_89","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2024,3,12]],"date-time":"2024-03-12T12:23:41Z","timestamp":1710246221000},"score":1,"resource":{"primary":{"URL":"https:\/\/link.springer.com\/10.1007\/978-3-319-95930-6_89"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018]]},"ISBN":["9783319959290","9783319959306"],"references-count":21,"URL":"https:\/\/doi.org\/10.1007\/978-3-319-95930-6_89","relation":{},"ISSN":["0302-9743","1611-3349"],"issn-type":[{"type":"print","value":"0302-9743"},{"type":"electronic","value":"1611-3349"}],"subject":[],"published":{"date-parts":[[2018]]},"assertion":[{"value":"6 July 2018","order":1,"name":"first_online","label":"First Online","group":{"name":"ChapterHistory","label":"Chapter History"}},{"value":"ICIC","order":1,"name":"conference_acronym","label":"Conference Acronym","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"International Conference on Intelligent Computing","order":2,"name":"conference_name","label":"Conference Name","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"Wuhan","order":3,"name":"conference_city","label":"Conference City","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"China","order":4,"name":"conference_country","label":"Conference Country","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"2018","order":5,"name":"conference_year","label":"Conference Year","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"15 August 2018","order":7,"name":"conference_start_date","label":"Conference Start Date","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"18 August 2018","order":8,"name":"conference_end_date","label":"Conference End Date","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"14","order":9,"name":"conference_number","label":"Conference Number","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"icic2018","order":10,"name":"conference_id","label":"Conference ID","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"http:\/\/ic-ic.tongji.edu.cn\/2018\/index.htm","order":11,"name":"conference_url","label":"Conference URL","group":{"name":"ConferenceInfo","label":"Conference Information"}},{"value":"Single-blind","order":1,"name":"type","label":"Type","group":{"name":"ConfEventPeerReviewInformation","label":"Peer Review Information (provided by the conference organizers)"}},{"value":"LOD","order":2,"name":"conference_management_system","label":"Conference Management System","group":{"name":"ConfEventPeerReviewInformation","label":"Peer Review Information (provided by the conference organizers)"}},{"value":"632","order":3,"name":"number_of_submissions_sent_for_review","label":"Number of Submissions Sent for Review","group":{"name":"ConfEventPeerReviewInformation","label":"Peer Review Information (provided by the conference organizers)"}},{"value":"275","order":4,"name":"number_of_full_papers_accepted","label":"Number of Full Papers Accepted","group":{"name":"ConfEventPeerReviewInformation","label":"Peer Review Information (provided by the conference organizers)"}},{"value":"72","order":5,"name":"number_of_short_papers_accepted","label":"Number of Short Papers Accepted","group":{"name":"ConfEventPeerReviewInformation","label":"Peer Review Information (provided by the conference organizers)"}},{"value":"44% - The value is computed by the equation \"Number of Full Papers Accepted \/ Number of Submissions Sent for Review * 100\" and then rounded to a whole number.","order":6,"name":"acceptance_rate_of_full_papers","label":"Acceptance Rate of Full Papers","group":{"name":"ConfEventPeerReviewInformation","label":"Peer Review Information (provided by the conference organizers)"}},{"value":"3.46","order":7,"name":"average_number_of_reviews_per_paper","label":"Average Number of Reviews per Paper","group":{"name":"ConfEventPeerReviewInformation","label":"Peer Review Information (provided by the conference organizers)"}},{"value":"0","order":8,"name":"average_number_of_papers_per_reviewer","label":"Average Number of Papers per Reviewer","group":{"name":"ConfEventPeerReviewInformation","label":"Peer Review Information (provided by the conference organizers)"}},{"value":"Yes","order":9,"name":"external_reviewers_involved","label":"External Reviewers Involved","group":{"name":"ConfEventPeerReviewInformation","label":"Peer Review Information (provided by the conference organizers)"}}]}}