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We love solving hard problems from evolution and adaptive immunology. We enjoy all facets of computational biology research, from diving deeply into biological questions, to mathematical and stat...
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Introduction Pplacer places query sequences on a fixed reference phylogenetic tree according to a reference alignment. In maximum likelihood (ML) mode, pplacer tries to find the attachement location ...
Matsen.fhcrc.org news digest
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5 years
Human T cell receptor occurrence patterns encode immune history, genetic backgro...
High-throughput sequencing of our adaptive immune repertoires holds great promise for understanding immune state… right?These sequences implicitly contain a wealth of information on past and present exposures to infectious and autoimmune diseases, to...
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5 years
The Bayesian optimist's guide to adaptive immune receptor repertoire analysis
Immune receptor sequencing is stochastic through and through.We have cells with random V(D)J rearrangements that are stimulated through some random process of exposures, which lead to some random amount of expansion, and in the B cell case there is some...
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5 years
Benchmarking tree and ancestral sequence inference for B cell receptor sequences
Phylogenetic tools, in particular for ancestral sequence reconstruction, get used a lot in the B cell receptor (BCR) sequence analysis world.For example, they get used to reconstruct intermediate antibodies that then get synthesized in the lab and tested...
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6 years
Predicting B cell receptor substitution profiles using public repertoire data
Can we predict how sites of an antibody will tolerate amino acid substitutions?Kristian Davidsen posed this question shortly after he arrived in my group, pointing out that being able to do such prediction would be quite useful.For example, engineered...
Domain history
| Web host: | The Fred Hutchinson Cancer Research Center |
| Registrar: | Public Interest Registry |
| Registrant: | Fred Hutchinson Cancer Research Center |
| Updated: | April 14, 2023 |
| Expires: | April 14, 2034 |
| Created: | September 09, 2002 |
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