TRUST4: immune repertoire reconstruction from bulk and single-cell RNA-seq data

Nat Methods. 2021 Jun;18(6):627-630. doi: 10.1038/s41592-021-01142-2. Epub 2021 May 13.

Abstract

We introduce the TRUST4 open-source algorithm for reconstruction of immune receptor repertoires in αβ/γδ T cells and B cells from RNA-sequencing (RNA-seq) data. Compared with competing methods, TRUST4 supports both FASTQ and BAM format and is faster and more sensitive in assembling longer-even full-length-receptor repertoires. TRUST4 can also call repertoire sequences from single-cell RNA-seq (scRNA-seq) data without V(D)J enrichment, and is compatible with both SMART-seq and 5' 10x Genomics platforms.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Algorithms*
  • Receptors, Antigen, B-Cell / genetics
  • Receptors, Antigen, T-Cell / genetics
  • Receptors, Immunologic / genetics*
  • Sequence Analysis, RNA / methods*
  • Single-Cell Analysis / methods*
  • V(D)J Recombination

Substances

  • Receptors, Antigen, B-Cell
  • Receptors, Antigen, T-Cell
  • Receptors, Immunologic