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B cells express immunoglobulin (Ig) molecules on their outer surface and secrete them into the extracellular space. Secreted Ig is known as antibody. The genes that encode for antibodies are generated by many diversifying mechanisms including combinatorial rearrangement of gene segments, addition of non-templated (n) nucleotides at the junctions, and somatic hypermutation. This circumstance presents the important challenge of inferring the components of the original rearrangement for any observed Ig gene.
(Munshaw and Kepler, 2010) SoDA2: a Hidden Markov Model approach for identification of immunoglobulin rearrangements. Bioinformatics.