Table 2.

Distribution and relative abundance of integration sites isolated from several cell types 6 and 12 months after therapy

Time point and cell typeTotal readsInferred cellsUnique sitesS.chao1GiniShannonUC50
6 mo        
 B cells 1 036 782 4639 3891 19855 0.1204 8.2045 1647 
  Monocytes 222 125 329 248 893 0.1950 5.4176 86 
  Neutrophils 803 235 2018 1522 6981 0.1866 7.2162 552 
 NK cells 1 111 841 3000 2128 7757 0.1751 7.5657 795 
 PBMC 684 175 2115 1386 4844 0.2668 7.0254 381 
 T cells 1 038 680 5685 3089 10 815 0.3937 7.4591 539 
12 mo        
 B cells 925 356 2197 1745 7702 0.1438 7.3907 701 
 Monocytes 347 061 351 242 1970 0.2517 5.3341 69 
 Neutrophils 558 321 729 492 1866 0.2496 6.0383 139 
 NK cells 507 007 697 469 1865 0.2413 6.0123 135 
 PBMC 463 071 2076 1744 7513 0.1387 7.3578 720 
 T cells 981 471 3142 2089 9696 0.2748 7.3678 574 
Time point and cell typeTotal readsInferred cellsUnique sitesS.chao1GiniShannonUC50
6 mo        
 B cells 1 036 782 4639 3891 19855 0.1204 8.2045 1647 
  Monocytes 222 125 329 248 893 0.1950 5.4176 86 
  Neutrophils 803 235 2018 1522 6981 0.1866 7.2162 552 
 NK cells 1 111 841 3000 2128 7757 0.1751 7.5657 795 
 PBMC 684 175 2115 1386 4844 0.2668 7.0254 381 
 T cells 1 038 680 5685 3089 10 815 0.3937 7.4591 539 
12 mo        
 B cells 925 356 2197 1745 7702 0.1438 7.3907 701 
 Monocytes 347 061 351 242 1970 0.2517 5.3341 69 
 Neutrophils 558 321 729 492 1866 0.2496 6.0383 139 
 NK cells 507 007 697 469 1865 0.2413 6.0123 135 
 PBMC 463 071 2076 1744 7513 0.1387 7.3578 720 
 T cells 981 471 3142 2089 9696 0.2748 7.3678 574 

The table summarizes the sample metadata and sequencing data and reports summary statistics for each sample. To summarize the data, the total number of sequence reads (total reads), the inferred number of cells with integrated vector identified (inferred cells), and the number of unique integration sites identified (unique sites) are shown. Statistics to summarize population structure are also presented. The Chao1 analysis (S.chao1) is an estimate of minimum population size.23  The Gini coefficient is a measure to represent distribution. Here, a value of 0 indicates even distribution of integration sites, while values increasing toward 1 demonstrate increasing inequality of integration site abundance within the population. The Shannon index summarizes diversity by accounting for both abundance and evenness among the integration sites in the cell population. Lastly, the UC50, a new metric, indicates the number of unique clones contributing the top 50% of the sample’s total abundance.16 

or Create an Account

Close Modal
Close Modal