SoDA statistics
SoDA specifications
Information
Unique identifier | OMICS_13775 |
---|---|
Name | SoDA |
Alternative name | Somatic Diversification Analysis |
Interface | Web user interface |
Restrictions to use | None |
Computer skills | Basic |
Stability | No |
Maintained | No |
Maintainer
Additional information
Publications for Somatic Diversification Analysis
SoDA2: a Hidden Markov Model approach for identification of immunoglobulin rearrangements.
SoDA: implementation of a 3D alignment algorithm for inference of antigen receptor recombinations.
SoDA in publications
(3)[…] clonally derived sequences., we compared igscueal with several other tools, including imgt/highv-quest v. 1.3.1 [], igblast v. 1.4.0 [] and ihmmune-align (1-06-2007) []. a binary version of soda (somatic diversification analysis, v. 1.1) was extracted from automation [], and python scripts were used to run soda for each query sequence and to parse the output. we also used vdjalign […]
[…] the pcr products were purified and sequenced. ig isotype was determined by sequence homology, and somatic hypermutation frequencies, inferred v(d)j rearrangement, and cdr3 length were determined by somatic diversification analysis (soda), a web-based programming algorithm. overlapping pcr was performed to co-express the variable region pcr products with full length igg1 (for heavy chain) […]
Initial antibodies binding to HIV 1 gp41 in acutely infected subjects are polyreactive and highly mutated
[…] the trigger for further antibody affinity maturation., to directly test the hypothesis that autologous env reactivity in ahi clonal lineages can arise distal to a founder naive b cell, we used somatic diversification analysis-2 (soda-2; ; ) and dna maximum likelihood (, , ) programs to infer reverted unmutated ancestors (ruas) of clonal lineages 558, 572, 712, and 728 (; and tables s7–11) […]
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