Dongbo Bu

TL;DR: A more inclusive new approach for analyzing duplication history is introduced here, which reveals an ancient whole-genome duplication, a recent segmental duplication on Chromosomes 11 and 12, and massive ongoing individual gene duplications.

TL;DR: A spectral method derived from graph theory was introduced to uncover hidden topological structures (i.e. quasi-cliques and quasi-bipartites) of complicated protein-protein interaction networks and suggest that they consist of biologically relevant functional groups.

TL;DR: A novel classification system, labeled process function class, to integrate existing classification systems and provides a user-friendly interface, a visualization platform and a convenient search option, allowing efficient recovery of sequence, regulatory elements in the flanking sequences, secondary structure, related publications and other information.

TL;DR: Two new classes of ncRNAs are identified, stem-bulge RNAs (sbRNAs) and snRNA-likeRNAs (snlRNAs), both featuring distinct internal motifs, secondary structures, upstream elements, and high and developmentally variable expression.

TL;DR: Experimental results suggest that predicted inter‐residue distance is helpful to both protein alignment and template selection especially for protein sequences without very close templates, and that the proposed DeepThreader method outperforms currently popular homology modeling method HHpred and threading method CNFpred by a large margin and greatly outperforms the latest contact‐assisted proteinthreading method EigenTHREADER.