Relative genomic abundance at different levels of taxonomic classification after removal of human reads
| Range | Figure - link % |
|---|---|
| Organism | Various |
| Reference | De Vlaminck I et al., Temporal response of the human virome to immunosuppression and antiviral therapy. Cell. 2013 Nov 21 155(5):1178-87. doi: 10.1016/j.cell.2013.10.034. p.1179 figure 1(F)PubMed ID24267896 |
| Method | "Microbiome-derived sequences were identified after computational subtraction of human-derived sequences (Weber et al., 2002 Xu et al., 2003). To this end, duplicate and low-quality reads were removed and the remaining reads were mapped to the human reference genome, build hg19 (BWA [Li and Durbin, 2009], see Experimental Procedures). Unmapped reads were then collected, and low-complexity reads were removed (SEQCLEAN, link ). Figure 1E shows the distribution of the remaining read fraction after applying duplicate and quality filters (average of 86%) and the distribution of the remaining fraction after subtraction of human reads (average of 2%)." |
| Comments | Figure 1(F) caption: "Relative genomic abundance at different levels of taxonomic classification after removal of human reads (average over all samples from all organ transplant recipients [n = 656]). The central pie chart shows the composition at the superkingdom level of classification. Lower levels of classification are shown in donut charts with progressively larger radius." |
| Entered by | Uri M |
| ID | 110705 |