Welcome to TCRex!

TCRex predicts TCR–epitope binding for human T cell receptors (TCRs) using TCR beta chain information, i.e. the CDR3 amino acid sequence and the corresponding V/J genes. It is based on random forest classifiers trained on epitope-specific TCR data collected from the manually curated catalogue of pathology-associated T cell receptor sequences (McPAS-TCR) and the VDJ database (VDJdb). In total prediction models for 49 different epitopes, consisting of 44 viral and 5 cancer epitopes, are provided. Check the statistics page for detailed information about the performance of the individual prediction models.

Although TCRex supports a wide range of epitopes it might not include a prediction model for your epitope(s) of interest. However, in this case you can use our optimized machine learning and prediction workflow to train your own custom model using the new epitopes page.

In addition, TCRex can be used to perform epitope-specificity enrichment analyses to identify the epitopes that are targeted by the uploaded TCR data set.

Detailed information on how to use TCRex and interpret the results is provided on the instructions page.

Predict TCR–epitope binding

TCRex supports sequence data information in the TCRex format, the MiXCR format, and the immunoSEQ ANALYZER format (version 1 & 2).

Attention: TCRex only supports prediction files with at most 50 000 TCR sequences.

Select epitope(s)

Viral
CMV
IPSINVHHY NLVPMVATV QIKVRVKMV
QYDPVAALF TPRVTGGGAM VTEHDTLLY
YSEHPTFTSQY
DENV1
GTSGSPIVNR
DENV2
GTSGSPIIDK
DENV3/4
GTSGSPIINR
EBV
EPLPQGQLTAY GLCTLVAML HPVGEADYFEY
IVTDFSVIK RAKFKQLL YVLDHLIVV
HCV
ARMILMTHF ATDALMTGY CINGVCWTV
HSKKKCDEL KLVALGINAV
HIV
EIYKRWII FLKEKGGL FPRPWLHGL
FRDYVDRFYKTLRAEQASQE HPKVSSEVHI IIKDYGKQM
ISPRTLNAW KAFSPEVIPMF KRWIILGLNK
KRWIIMGLNK LPPIVAKEI QVPLRPMTYK
RFYKTLRAEQASQ RLRPGGKKK RYPLTFGWCF
TPGPGVRYPL TPQDLNTML
HSV2
RPRGEVRFL
HTLV1
SFHSLHLLF
Influenza
GILGFVFTL LPRRSGAAGA PKYVKQNTLKLAT
YellowFeverVirus
LLWNGPMAV
Cancer
Melanoma
AMFWSVPTV EAAGIGILTV ELAGIGILTV
FLYNLLTRV
Multiple Myeloma
LLLGIGILV

Advanced settings

Enrichment threshold
%

TCRex is available for academic, non-personal research only. By using TCRex you agree to uphold and are bound by its terms and conditions.


TCRex has been developed as a joint project between AUDACIS, biomina, and the Adrem Data Lab. More information about these collaborators can be found on the about page.

Please cite following preprint if you want to use TCRex in your work:
S. Gielis, P. Moris, N. De Neuter, W. Bittremieux, B. Ogunjimi, K. Laukens, P. Meysman. TCRex: a webtool for the prediction of T-cell receptor sequence epitope specificity. bioRxiv, 2018.