PT  - JOURNAL ARTICLE
AU  - Shinobu Yamamoto
AU  - Elizabeth Whalen
AU  - Daisuke Chujo
AU  - Durgha Nattamai
AU  - Nicole Baldwin
AU  - Kimberly O’Brien
AU  - Quynh-Anh Nguyen
AU  - Vivian Gersuk
AU  - Esperanza Anguiano
AU  - Junbao Yang
AU  - William W Kwok
AU  - Jacques Banchereau
AU  - Hideki Ueno
AU  - Damien Chaussabel
TI  - A systems approach to the characterization and classification of T-cell responses
AID  - 10.1101/175620
DP  - 2017 Jan 01
TA  - bioRxiv
PG  - 175620
4099  - http://biorxiv.org/content/early/2017/08/13/175620.short
4100  - http://biorxiv.org/content/early/2017/08/13/175620.full
AB  - Types of T-cell responses are categorized on the basis of a limited number of molecular markers selected using a priori knowledge about T-cell immunobiology. We sought to develop a novel systems-based approach for the creation of an unbiased framework enabling assessment of antigenic-peptide specific T-cell responses in vitro. A meta-analysis of transcriptome data from PBMCs stimulated with a wide range of peptides identified patterns of gene regulation that provided an unbiased classification of types of antigen-specific responses. Further analysis yielded new insight about the molecular processes engaged following antigenic stimulation. This led for instance to the identification of transcription factors not previously studied in the context of T-cell differentiation. Taken together this profiling approach can serve as a basis for the unbiased characterization of antigen-specific responses and as a foundation for the development of novel systems-based immune profiling assays.