PMC

Study selection process and reasons for the exclusion of studies.

Protein alignment and detected mutations. A shows the detection of a mutation. B shows frameshift creation. C shows stop-codon creation. The whole alignment can be observed by horizontally scrolling the alignment window. These representations emphasize the effect of the mutation on the protein chain to provide solid understanding in terms of establishing therapy and monitoring.

MUBII general organization. The MUBII-TB-DB database and the de novo constructed mutation database (orange frame) are built before the query session. The mutation database is used for the results interpretation and for the construction of the BLAST mutation database. Ovals indicate the use of external software (dark green) or of MUBII routines (pale green). The query analysis process (green frame) combines the BLAST result and the expertise of the alignment using the mutation database. Outputs are in blue.

Screen capture of an rpoB query: DNA alignment and detected mutations. The figure shows an example of the detection of a mutation. The whole nucleotide alignment can be observed by horizontally scrolling the alignment window. In the case of the rpoB gene mutation, the nucleotide positions in M. tuberculosis and E. coli are indicated. The protein scheme compares the wild-type and query sequences for a given position. This scheme describes the changes along the protein sequence and emphasizes the effect of the mutation on the protein chain.