MK_RS1NF

<p>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.</p>

datasets

Provides a computational framework for analyzing mutations in
immunoglobulin (Ig) sequences. Includes methods for Bayesian estimation of
antigen-driven selection pressure, mutational load quantification, building of
somatic hypermutation (SHM) models, and model-dependent distance calculations.
Also includes empirically derived models of SHM for both mice and humans.
Citations:
Gupta and Vander Heiden, et al (2015) <doi:10.1093/bioinformatics/btv359>,
Yaari, et al (2012) <doi:10.1093/nar/gks457>,
Yaari, et al (2013) <doi:10.3389/fimmu.2013.00358>,
Cui, et al (2016) <doi:10.4049/jimmunol.1502263>.

Susanna Marquez

shazam

Immunoglobulin Somatic Hypermutation Analysis

Mohamed Uduman

Namita Gupta

Julian Zhou

Nima Nouri

Noah Yann Lee

Ang Cui

Jason Vander Heiden

Gur Yaari

Steven Kleinstein

MK_RS1NF function

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

Format

Mouse kappa chain, replacement and silent, 1-mer, non-functional substitution model. — MK_RS1NF

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

MK_RS1NF: Mouse kappa chain, replacement and silent, 1-mer, non-functional substitution model.

Description

Usage

Arguments

Format

References

See Also