Figure 1
From: Human thymic putative CD8αα precursors exhibit a biased TCR repertoire in single cell AIRR-seq
Single cell gene expression (GEX) and adaptive immune receptor repertoire (AIRR) sequencing of young paediatric (N = 5) thymi and blood. (A) Experimental set-up. For each donor, single cell AIRR sequencing was performed for one PBMC sample and three thymic samples. Created using content from Servier Medical Art, provided by Servier, licensed under a Creative Commons Attribution 3.0 unported license, and graphics adapted from 10 × Genomics. (B) Clonotype Neighbour Graph Analysis (CoNGA) for identification of correlations between thymocyte GEX and T cell receptor (TCR) datasets. (I) Clonotypes that are highly similar in either the GEX (top row) or TCR (bottom row) datasets, based on neighbourhood graphs, are clustered together. (II) Groups of clonotypes with similar GEX and TCR profiles are identified as having low “CoNGA scores”. The “CoNGA scores” reflect the likelihood of seeing equal or greater overlap between the GEX and TCR dataset by chance, when overlap is assessed as shared neighbours between the two datasets for each clonotype. (III) Clonotypes with low “CoNGA scores” (“CoNGA hits”) are grouped into “CoNGA clusters”, bi-coloured discs indicate their GEX (left half) and TCR (right half) cluster assignment.
