Technologies

We are developing novel single cell, high-throughput experimental, computational and machine learning tools aimed at probing the immune system function and dysregulation from unique perspectives.

Published lab and computational methodologies include: 

• MLtiplet: scRNA-seq doublet/multiplet detection using multi-omic profiling (2021) (https://github.com/rbr1/MLtiplet_2.0).

• Isotype-resolved high-throughput BCR sequencing and analyses in humans (Bashford-Rogers, et al., Nature 2019), mice (Burrows, Bashford-Rogers, et al., Nature Immunology, 2020), llamas (McCoy, et al., PLoS Pathog, 2014), and other organisms.

• High-throughput TCR sequencing and analyses (De Mattos-Arruda et al., Cell Reports, 2019).

• Ultrasensitive amplicon barcoding for next-generation sequencing facilitating sequence error and amplification-bias correction (Ahmed, et al., Scientific Reports, 2020) (https://github.com/rbr1/sUMI_processing_pipeline).

• Immune-Repertoire-Network-Generation: open source program that performs population analyses on B and T cell repertoires (2013) (https://github.com/rbr1/Immune_receptor_NETWORK-GENERATION).