PT  - JOURNAL ARTICLE
AU  - Bo Li
AU  - Taiwen Li
AU  - Binbin Wang
AU  - Ruoxu Dou
AU  - Jean-Chrisophe Pignon
AU  - Toni K. Choueiri
AU  - Sabina Signoretti
AU  - Jun S Liu
AU  - Xiaole Shirley Liu
TI  - Ultrasensitive detection of TCR hypervariable region in solid-tissue RNA-seq data
AID  - 10.1101/073395
DP  - 2016 Jan 01
TA  - bioRxiv
PG  - 073395
4099  - http://biorxiv.org/content/early/2016/09/09/073395.short
4100  - http://biorxiv.org/content/early/2016/09/09/073395.full
AB  - Characterization of tissue-infiltrating T cell repertoire is critical to understanding tumor-immune interactions and autoimmune disease etiology. We present TRUST, an open source algorithm for calling the TCR transcript hypervariable CDR3 regions using unselected RNA-seq data profiled from solid tissues. TRUST achieved high sensitivity in CDR3 calling even for samples with low sequencing depth and has demonstrated utilities in its application to large tumor cohorts.