Benchmarking Tree and Ancestral Sequence Inference for B Cell Receptor Sequences

by Kristian Davidsen, Frederick A. Matsen
Published 2018-10-01

Per-sample immunoglobulin germline inference from B cell receptor deep sequencing data.

by Duncan K Ralph, Frederick A Matsen
Published 2019-07-01

Using B cell receptor lineage structures to predict affinity.

by Duncan K Ralph, Frederick A Matsen
Published 2020-11-01

Edge principal components and squash clustering: using the special structure of phylogenetic placement data for sample comparison.

by Frederick A Matsen, Steven N Evans
Published 2013-01-01

Consistency of VDJ Rearrangement and Substitution Parameters Enables Accurate B Cell Receptor Sequence Annotation.

by Duncan K Ralph, Frederick A Matsen
Published 2016-01-01

Likelihood-Based Inference of B Cell Clonal Families.

by Duncan K Ralph, Frederick A Matsen
Published 2016-10-01

Correction: Edge Principal Components and Squash Clustering: Using the Special Structure of Phylogenetic Placement Data for Sample Comparison

by Frederick A. Matsen IV, Steven N. Evans
Published 2013-01-01

Correction: Edge Principal Components and Squash Clustering: Using the Special Structure of Phylogenetic Placement Data for Sample Comparison.

by Frederick A. Matsen IV, Steven N. Evans
Published 2013-01-01

Abundance-weighted phylogenetic diversity measures distinguish microbial community states and are robust to sampling depth

by Connor O. McCoy, Frederick A. Matsen IV
Published 2013-09-01

A format for phylogenetic placements.

by Frederick A Matsen, Noah G Hoffman, Aaron Gallagher, Alexandros Stamatakis
Published 2012-01-01

Predicting B cell receptor substitution profiles using public repertoire data.

by Amrit Dhar, Kristian Davidsen, Frederick A Matsen, Vladimir N Minin
Published 2018-10-01

A Bayesian phylogenetic hidden Markov model for B cell receptor sequence analysis.

by Amrit Dhar, Duncan K Ralph, Vladimir N Minin, Frederick A Matsen
Published 2020-08-01

Preoperative Skin Cultures Predict Periprosthetic Infections in Revised Shoulder Arthroplasties

by Frederick A. Matsen, III, MD, Anastasia Whitson, BSPH, Jason E. Hsu, MD
Published 2020-12-01

Anatomic Total Shoulder Arthroplasty with All-Polyethylene Glenoid Component for Primary Osteoarthritis with Glenoid Deficiencies

by Frederick A. Matsen, III, MD, Anastasia J. Whitson, BSPH, Jeremy S. Somerson, MD, Jason E. Hsu, MD
Published 2020-12-01

Human T cell receptor occurrence patterns encode immune history, genetic background, and receptor specificity

by William S DeWitt III, Anajane Smith, Gary Schoch, John A Hansen, Frederick A Matsen IV, Philip Bradley
Published 2018-08-01

PhyloSift: phylogenetic analysis of genomes and metagenomes

by Aaron E. Darling, Guillaume Jospin, Eric Lowe, Frederick A. Matsen IV, Holly M. Bik, Jonathan A. Eisen
Published 2014-01-01

Deep generative models for T cell receptor protein sequences

by Kristian Davidsen, Branden J Olson, William S DeWitt III, Jean Feng, Elias Harkins, Philip Bradley, Frederick A Matsen IV
Published 2019-09-01

Phylogenomic analysis reveals dynamic evolutionary history of the Drosophila heterochromatin protein 1 (HP1) gene family.

by Mia T Levine, Connor McCoy, Danielle Vermaak, Yuh Chwen G Lee, Mary Alice Hiatt, Frederick A Matsen, Harmit S Malik
Published 2012-01-01

More than meets the eye: associations of vaginal bacteria with gram stain morphotypes using molecular phylogenetic analysis.

by Sujatha Srinivasan, Martin T Morgan, Congzhou Liu, Frederick A Matsen, Noah G Hoffman, Tina L Fiedler, Kathy J Agnew, Jeanne M Marrazzo, David N Fredricks
Published 2013-01-01

Non-Human Primates Harbor Diverse Mammalian and Avian Astroviruses Including Those Associated with Human Infections.

by Erik A Karlsson, Christopher T Small, Pamela Freiden, M M Feeroz, Frederick A Matsen, Sorn San, M Kamrul Hasan, David Wang, Lisa Jones-Engel, Stacey Schultz-Cherry
Published 2015-01-01