Oxford Nanopore MinION sequencing of multiplex PCR amplified, pathogen-spiked blood and plasma samples

ABSTRACT: To evaluate targeted MinION next generation sequencing as a diagnostic method for detection of pathogens in human blood and plasma, human blood or plasma samples were spiked with measured amounts of viruses, bacteria, protozoan parasites or tested pathogen-free as negative controls. Nucleic acid was extracted from samples and PCR amplification performed in multiplex primer pools with a procedure described in ArrayExpress experiment submission ID 18379. The PCR products were used for library preparation. The libraries sequenced on an Oxford Nanopore MinION. The passed reads aligned with a custom reference file to determine the identity of the pathogen in the sample.

INSTRUMENT(S): Bio-Rad T100 Thermocycler, MinION, HIVE computer cluster

ORGANISM(S): Homo sapiens

SUBMITTER:  

PROVIDER: E-MTAB-14011 | biostudies-arrayexpress |

SECONDARY ACCESSION(S): ERP159754

REPOSITORIES: biostudies-arrayexpress