We describe MUSCLE, a new computer program for creating multiple alignments of protein
sequences. Elements of the algorithm include fast distance estimation using k mer counting …

With its theoretical basis firmly established in molecular evolutionary and population
genetics, the comparative DNA and protein sequence analysis plays a central role in …

There is growing interest in the application of machine learning techniques in bioinformatics.
The supervised machine learning approach has been widely applied to bioinformatics and …

In addition to maintaining the GenBank (R) nucleic acid sequence database, the National
Center for Biotechnology Information (NCBI) provides data analysis and retrieval resources …

Although often considered “minimal” organisms, mycoplasmas show a wide range of
diversity with respect to host environment, phenotypic traits, and pathogenicity. Here we …

Measles virus (MV) enters cells either through the signaling lymphocyte activation molecule
SLAM (CD150) expressed only in immune cells or through the ubiquitously expressed …

The SUPERFAMILY database provides structural assignments to protein sequences and a
framework for analysis of the results. At the core of the database is a library of profile Hidden …

Modern protein secondary structure prediction methods are based on exploiting
evolutionary information contained in multiple sequence alignments. Critical steps in the …

Background/Aims: Previous studies on patients with primary biliary cirrhosis (PBC) have
shown extensive cross-reactivity between the dominant B-and T-cell epitopes of human …

This article describes the PROSPECTOR_3 threading algorithm, which combines various
scoring functions designed to match structurally related target/template pairs. Each variant …