FB5P-seq

FB5P-seq performs integrative analysis of 5'-end single-cell RNA sequencing (scRNA-seq) data from FACS-sorted B and T cells to link transcriptome profiles with B cell receptor (BCR) and T cell receptor (TCR) repertoires.

Key Features:

• Integrative Analysis: Combines 5'-end scRNA-seq transcriptomes with BCR and TCR repertoire reconstruction in phenotypically defined B and T cell subsets.
• Clonal Lineage Tracking: Enables tracking of clonal lineages by leveraging unique rearranged antigen receptor sequences.
• Cost-Effectiveness: Optimizes an experimental and computational workflow to reduce per-cell sequencing cost while capturing 5'-end transcripts required for receptor linkage.
• Bioinformatics Pipeline: Processes scRNA-seq reads to compute gene count matrices and reconstruct antigen receptor sequences (BCR/TCR) using a dedicated computational pipeline.

Scientific Applications:

• Immune repertoire and transcriptome integration: Facilitates combined analysis of gene expression and antigen receptor diversity in B and T cells.
• Characterization of rare adaptive immune subsets: Applied to human tonsil B cell subsets and peripheral blood antigen-specific CD4 T cells to resolve subset-specific transcriptomes and repertoires.

Methodology:

Computational processing includes computing gene count matrices from 5'-end scRNA-seq reads and reconstructing BCR and TCR sequences through a bioinformatics pipeline.