Metagenomic Sequencing Detects Respiratory Pathogens in Hematopoietic Cellular Transplant Patients

C Langelier; MS Zinter; K Kalantar; GA Yanik; S Christenson; B Odonovan; C White; M Wilson; A Sapru; CC Dvorak; S Miller; CY Chiu; JL DeRisi

The copyright holder for this preprint (which was not peer-reviewed) is the author/funder. . https://doi.org/10.1101/102798 doi: bioRxiv preprint rpM nt x (Z nt + Z nr )]. To further improve the specificity of microbial assignments: we required 1) microbes to be detected in both nt and nr database alignments, 2) microbes to have a Z nt and Z nr greater than zero, and 3) bacteria and fungi detected by RNAseq to also have detectable genomic sequence by DNAseq. For each patient, any microbes that passed these requirements were then classified as either 1) confirmed pathogens, 2) new potential pathogens or 3) unlikely or uncertain pathogens. The copyright holder for this preprint (which was not peer-reviewed) is the author/funder. Table E5 .