Computational protocol: Detection of hepatitis B virus isolates with mutations associated with immune escape mutants among pregnant women in Ibadan, southwestern Nigeria

Similar protocols

Protocol publication

[…] Amino acid residues at positions 122, 127, 134 and 160 were initially used to determine HBV genotypes and serotypes (Forbi et al.). Subsequently, HBsAg reference sequences were retrieved from the HBV database (http://hbvdb.ibcp.fr/HBVdb/) and aligned using the CLUSTAL W program in MEGA 5 software with default settings (Tamura et al.). Afterwards, a neighbor-joining tree was constructed using MEGA 5 software with the Kimura-2 parameter model (Kimura ) and 1,000 bootstrap replicates. Furthermore, pairwise distance of the HBsAg sequences were estimated using MEGA 5 software with Kimura-2 parameter model (Kimura ). The accession numbers of sequences retrieved from HBV database for phylogenetic analysis are indicated in the sequence names on the phylograms. […]

Pipeline specifications

Software tools Clustal W, MEGA
Databases HBVdb
Organisms Homo sapiens, Hepatitis B virus
Diseases Hepatitis B