Comparison of NR and UniClust Databases for Protein Secondary Structure Prediction

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dc.contributor.authorAydin, Zafer
dc.contributor.authorKaynar, Oguz
dc.contributor.authorGormez, Yasin
dc.date.accessioned2024-10-26T17:59:53Z
dc.date.available2024-10-26T17:59:53Z
dc.date.issued2018
dc.departmentSivas Cumhuriyet Üniversitesi
dc.description26th IEEE Signal Processing and Communications Applications Conference (SIU) -- MAY 02-05, 2018 -- Izmir, TURKEY
dc.description.abstractThree-dimensional structure prediction is one of the important problems in bioinformatics and theoretical chemistry. One of the most important steps in the three-dimensional structure prediction is the estimation of secondary structure. Improving the accuracy rate in protein secondary structure prediction depends on computed attributes as well as the classification algorithms. In multiple alignment methods, which are often used to extract an attribute, the calculated values differ according to the database used for the alignment. For this reason, it is important to use a suitable database against which the target proteins are aligned to compute profile feature vectors. In this study, 5 different datasets are generated for the CB513 benchmark with the aid of two different alignment methods and three different databases. The profile features are fed as input to a two-stage hybrid classifier. According to the experimental results, the highest accuracy rate is obtained when UniClust database is used at the first stage of HHBlits alignment to calculate PSSM values and NR database is used at the first stage of HHBlits alignment to calculate structural profile matrices.
dc.description.sponsorshipIEEE,Huawei,Aselsan,NETAS,IEEE Turkey Sect,IEEE Signal Proc Soc,IEEE Commun Soc,ViSRATEK,Adresgezgini,Rohde & Schwarz,Integrated Syst & Syst Design,Atilim Univ,Havelsan,Izmir Katip Celebi Univ
dc.identifier.isbn978-1-5386-1501-0
dc.identifier.issn2165-0608
dc.identifier.urihttps://hdl.handle.net/20.500.12418/27390
dc.identifier.wosWOS:000511448500138
dc.identifier.wosqualityN/A
dc.indekslendigikaynakWeb of Science
dc.language.isotr
dc.publisherIEEE
dc.relation.ispartof2018 26th Signal Processing and Communications Applications Conference (Siu)
dc.relation.publicationcategoryKonferans Öğesi - Uluslararası - Kurum Öğretim Elemanı
dc.rightsinfo:eu-repo/semantics/closedAccess
dc.subjectSecondary Structure Prediction
dc.subjectProtein Structure Prediction
dc.subjectMulti Alignment
dc.subjectProtein Database
dc.titleComparison of NR and UniClust Databases for Protein Secondary Structure Prediction
dc.typeConference Object

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