A Large-Scale Assessment of Nucleic Acids Binding Site Prediction Programs.

ABSTRACT: Computational prediction of nucleic acid binding sites in proteins are necessary to disentangle functional mechanisms in most biological processes and to explore the binding mechanisms. Several strategies have been proposed, but the state-of-the-art approaches display a great diversity in i) the definition of nucleic acid binding sites; ii) the training and test datasets; iii) the algorithmic methods for the prediction strategies; iv) the performance measures and v) the distribution and availability of the prediction programs. Here we report a large-scale assessment of 19 web servers and 3 stand-alone programs on 41 datasets including more than 5000 proteins derived from 3D structures of protein-nucleic acid complexes. Well-defined binary assessment criteria (specificity, sensitivity, prec

SUBMITTER: Miao Z 

PROVIDER: S-EPMC4683125 | biostudies-literature | 2015 Dec

REPOSITORIES: biostudies-literature