MK_RS1NF {shazam}

Mouse kappa chain, replacement and silent, 1-mer, non-functional substitution model.

Description

1-mer substitution model of somatic hypermutation based on analysis of replacement and silent mutations in non-functional kappa light chain Ig sequences from NP-immunized Mus musculus.

Usage

MK_RS1NF

Format

A 4x4 matrix of nucleotide substitution rates. The rates are normalized, therefore each row sums up to 1.

Note

MK_RS1NF replaces M1NDistance from versions of SHazaM prior to 0.1.5.

References

1. Cui A, Di Niro R, Vander Heiden J, Briggs A, Adams K, Gilbert T, O'Connor K, Vigneault F, Shlomchik M and Kleinstein S (2016). A Model of Somatic Hypermutation Targeting in Mice Based on High-Throughput Ig Sequencing Data. The Journal of Immunology, 197(9), 3566-3574.

See Also

See HH_S1F for the human heavy chain 1-mer substitution model and HKL_S1F for the human light chain 1-mer substitution model.