Skip to main content

Table 3 Clonality comparison of the most abundant clonotypes based on CDR3 amino acid sequences in IMEX

From: ImmunExplorer (IMEX): a software framework for diversity and clonality analyses of immunoglobulins and T cell receptors on the basis of IMGT/HighV-QUEST preprocessed NGS data

CDR3 sequences TRB Primer Set 2: CD4-/CD8+ T3 TRB Primer Set 2: CD4+/CD8- T3 MNC TRB Primer Set 2 T3
ASSMGQNNEQF 14.29447899 0.049037396 6.779536212
ASSVSGEGSDEQF 12.25748767 0.113766759 5.087625888
ASSGFGEVAPTMSS 5.681129492 0.002942244 1.856173462
FNPASGNIQY 2.506490689 0.003922992 1.020130731
ASLPGKLVRDPV 1.426455074 0.00245187 0.522809919
ASSLSSGFASYNEQF 1.366224477 0.00245187 0.570389587
ASSLGQNNEQF 1.048236852 0.002942244 0.481460922
AWSALAGDYNEQF 0.724263578 0.005394114 0.457671089
ASSLYNEQF 0.525988942 0.028932064 0.32286203
ASSLRYNEQF 0.414880324 0.002942244 0.233366941
SVGFLAGSTDTQY 0.062101113 0.860115924 0.549998301
SASGGLDETQY 0.003366928 0.398674029 0.240164037
ASSDD*RGGTDTQY 0.078187545 0.24273511 0.150102523
SVEVILDAGEQF 0.028431835 0.201543697 0.138207606
  1. We compared the top 20 clonotypes of the unsorted (mononuclear) and the sorted (CD4-/CD8+ and CD4+/CD8-) sample of the TRB primer set 2 timepoint 3. By using this method we could identify that the most expanded T cells in the proband p78690 belong to the T cell subtype CD4-/CD8+ (surface marker for cytotoxic T cells)