Kaitlyn M. Shields

An integrated human immunoglobulin germline resource linking allele diversity to expressed repertoire structure

This paper constructs HUSA, a comprehensive germline resource linking allele diversity to expressed antibody repertoires by integrating long-read sequencing and AIRR-seq data.

Development and validation of HIV SMRTcap for the characterization of HIV-1 reservoirs across tissues and subtypes

The paper introduces HIV SMRTcap, a method for characterizing HIV-1 reservoirs by identifying integration sites and proviral integrity using long-read sequencing, and validates its performance across subtypes and tissue samples.

The human IG heavy chain constant gene locus is enriched for large structural variants and coding polymorphisms that vary among human populations

The paper identifies structural variants and coding polymorphisms in the human IGHC locus, revealing population-specific diversity and potential functional impacts.

Germline polymorphism in the immunoglobulin kappa and lambda loci explain variation in the expressed light chain antibody repertoire

This study shows that genetic variations in immunoglobulin light chain loci influence the diversity of expressed light chain antibodies, affecting amino acid sequences and gene usage.

Human genetic variation shapes the antibody repertoire across B cell development

The paper investigates how genetic variation and selection shape antibody repertoires across B cell development stages, finding distinct roles for genetics and selection in heavy and light chain repertoires.

Diverse priming outcomes under conditions of very rare precursor B cells

The paper investigates how vaccine antigen delivery and adjuvant selection affect the priming of rare HIV broadly neutralizing antibody-precursor B cells in non-human primates, finding that specific dosing and adjuvant combinations enhance their detection in germinal centers.

A Broad Survey and Functional Analysis of Immunoglobulin Loci Variation in Rhesus Macaques

The paper develops methodologies to generate and analyze immunoglobulin loci variation in rhesus macaques, revealing extensive diversity and expanding existing allele sets by 60%.

Genetic variation in the immunoglobulin heavy chain locus shapes the human antibody repertoire

The paper shows that genetic variation in the immunoglobulin heavy chain locus influences the diversity and characteristics of the human antibody repertoire.

Characterization of the immunoglobulin lambda chain locus from diverse populations reveals extensive genetic variation

The paper characterizes the immunoglobulin lambda chain locus in diverse populations, identifying novel alleles and highlighting limitations of short-read sequencing.

Targeted long-read sequencing facilitates phased diploid assembly and genotyping of the human T cell receptor alpha, delta and beta loci

This paper uses targeted long-read sequencing to accurately assemble and genotype TCR loci, discovering new alleles and improving variant detection compared to short-read methods.