Skip to main content
Figure 3 | Genome Medicine

Figure 3

From: Overcoming bias and systematic errors in next generation sequencing data

Figure 3

Batch effect for second-generation sequencing data from the 1000 Genomes Project. This figure is similar to one from Leek et al. [10]. Each row in the heat-map is data from a different HapMap sample processed in the same facility with the same platform (see Leek et al. [10] for a description of the data), shown for a 3-Mb region on chromosome 16, with data summarized in 10-kb bins. Data from each bin were standardized across samples, with blue representing 3 standard deviations below average, and orange representing 3 standard deviations above average. The rows are ordered by date, with black lines separating different processing days. The largest batch effect can be seen on the alternating pattern of blue and orange on days 223 to 241 and days 244 to 251.

Back to article page