Overview of methodologies for T-cell receptor repertoire analysis

BMC Biotechnology

Table 3 Percentages of detected CDR3 sequences that are out of frame or contain stop codons

Out of frame and stop codons Clonotypes percentages		α chain				β chain
Out of frame and stop codons Clonotypes percentages		IRepertoire	5’RACE	5’RACE + UMI	BGI	IRepertoire	5’RACE	5’RACE + UMI	BGI
Patient 1	Out of frame CDR3%	6.3	9.5	8.4	36.5	1.2	3.1	2.7	16.3
Patient 1	Stop codons in CDR3%	1.2	2.0	1.5	8.3	0.3	0.8	0.8	4.5
Patient 2	Out of frame CDR3%	7.5	9.0	7.6	39.1	1.0	1.9	1.7	11.3
Patient 2	Stop codons in CDR3%	1.1	1.5	1.4	7.3	0.2	0.4	0.4	3.2

For each method (we took into account data from iRepertoire kit, 5’RACE PCR, 5’RACE PCR UMI-corrected and data from BGI) we present the percentages of sequences that were considered out of frame or that contain stop codons upon analysis with MiXCR. Data are shown for two patients and for both α and β chain

ISSN: 1472-6750