DBD-Threader specifications

Information


Unique identifier OMICS_03572
Name DBD-Threader
Interface Web user interface
Restrictions to use Academic or non-commercial use
Input data Protein sequence
Computer skills Basic
Stability No
Maintained No

Publication for DBD-Threader

DBD-Threader in publications

 (3)
PMCID: 5002159
PMID: 27565741
DOI: 10.1186/s12859-016-1201-8

[…] 6 fireflies concurrently.fig. 7, in recent years, several methods were proposed to identify dbps. these methods included dnabinder [], idna-prot [], endna-prot [], ndna-prot [], dbppred [], dbd-threader [] and zou’s method []. among these methods, dnabinder, idna-prot, endna-prot, ndna-prot, dbppred and zou’s method were sequence-based methods. to ensure a fair comparison with previous […]

PMCID: 4373352
PMID: 25890365
DOI: 10.1186/s13104-015-1039-6

[…] cases, whereas pfam domains with few overlaps should be rejected as false positives. the challenge is to find a suitable cutoff between these two alternatives., we used the threading-based method dbd-threader [] for the prediction of dna-binding domains. in this method dna-binding propensity is calculated using a statistical dna–protein pair potential. the sequence of a target protein […]

PMCID: 3901691
PMID: 24475169
DOI: 10.1371/journal.pone.0086703

[…] blind tests on the independent dataset pdb186 by the proposed model trained on the entire pdb594 dataset and by other five existing methods (including idna-prot, dna-prot, dnabinder, dnabind and dbd-threader) were performed, resulting in that the proposed dbppred yielded the highest accuracy of 0.769, mcc of 0.538, and auc of 0.790. the independent tests performed by the proposed dbppred […]


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DBD-Threader institution(s)
Center for the Study of Systems Biology, School of Biology, Georgia Institute of Technology, Atlanta, GA, USA

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