 Illuminating uveitis: metagenomic deep sequencing identifies common and rare pathogens Genome Medicine, 2016
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 Acute West Nile virus meningoencephalitis diagnosed via metagenomic deep sequencing of cerebrospinal fluid in a renal transplant patient American Journal of Transplantation, 2016
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 Multiplexed Metagenomic Deep Sequencing To Analyze the Composition of High-Priority Pathogen Reagents ASM mSystems, 2016
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 Novel Picornavirus Associated with Avian Keratin Disorder in Alaskan Birds mBio 2016
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 Anti-malarial benzoxaboroles target P. falciparum leucyl-tRNA synthetase AAC, 2016
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 Identification of Plasmodium falciparum specific translation inhibitors from the MMV Malaria Box using a high throughput in vitro translation screen Malaria Journal, 2016
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 Depletion of Abundant Sequences by Hybridization (DASH): Using Cas9 to remove unwanted highabundance species in sequencing libraries and molecular counting applications BioRxiv, 2015 and Genome Biology, 2016
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 Depletion of Abundant Sequences by Hybridization (DASH): Using Cas9 to remove unwanted highabundance species in sequencing libraries and molecular counting applications
With widespread adoption of next-generation sequencing (NGS) technologies, the need has arisen for a broadly applicable method to remove unwanted high-abundance species prior to sequencing. We introduce DASH (Depletion of Abundant Sequences by Hybridization), a facile technique for targeted depletion of undesired sequences. Sequencing libraries are DASHed with recombinant Cas9 protein complexed with a library of single guide RNAs (sgRNAs) programmed to target unwanted species for cleavage, thus preventing them from consuming sequencing space. We demonstrate up to 99% reduction of mitochondrial ribosomal RNA (rRNA) in HeLa cells, and enrichment of pathogen sequences up to 4-fold in metagenomic samples from patients with infectious diseases. Similarly, we demonstrate the utility of DASH in the context of cancer diagnostics by significantly increasing the detectable fraction of KRAS mutant sequences over the predominant wild-type allele. This simple single-tube method is reprogrammable for virtually any sample type to increase sequencing yield without additional cost. Read full publication here |
 Balamuthia mandrillaris is a rare, but almost always fatal cause of meningoencephalitis. The DeRisi Lab seeks contributions to support research and small molecule screening to identify possible therapeutic compounds. See our recent publication, Diagnosing Balamuthia mandrillaris Encephalitis with Metagenomic Deep Sequencing for more information about Balamuthia.
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