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Series GSE24626 Query DataSets for GSE24626
Status Public on Oct 15, 2010
Title Validation data for Lawrence Livermore Microbial Detection Array version 2
Platform organism synthetic construct
Sample organisms Chlorocebus aethiops; Homo sapiens; Vaccinia virus Lister; Bovine viral diarrhea virus 1; Human betaherpesvirus 6B
Experiment type Other
Summary We designed a pan-Microbial Detection Array (MDA) to detect all known viruses (including phage), bacteria, and plasmids. Family-specific probes were selected for all sequenced viral and bacterial complete genomes, segments, and plasmids. Probes were designed to tolerate some sequence variation to enable detection of divergent species with homology to sequenced organisms. The array has wider coverage of bacterial and viral targets based on more recent sequence data and more probes per target than other microbial detection/discovery arrays in the literature. In blinded lab testing on spiked samples with single or multiple viruses, the MDA was able to correctly identify species or strains. In clinical fecal, serum, and respiratory samples, the MDA was able to detect and characterize multiple viruses, phage, and bacteria in a sample to the family and species level, as confirmed by PCR.
Overall design Testing of microbial detection array with mixtures of known viruses, blinded clinical samples and viral cell culture samples.
Contributor(s) Gardner SN, Jaing CJ, McLoughlin KS, Slezak TR
Citation(s) 21108826
Submission date Oct 12, 2010
Last update date Mar 22, 2012
Contact name Kevin McLoughlin
Phone (925)423-5486
Organization name Lawrence Livermore National Laboratory
Department Global Security
Lab Pathogen Bioinformatics
Street address PO Box 808
City Livermore
State/province CA
ZIP/Postal code 94551
Country USA
Platforms (1)
GPL11040 Lawrence Livermore Microbial Detection Array version 2
Samples (19)
GSM607406 BVD_rndPCR2ng_1
GSM607407 Her_Vac_1
GSM607408 DeRset1_5
This SubSeries is part of SuperSeries:
GSE24700 Validation data for Lawrence Livermore Microbial Detection Arrays
BioProject PRJNA133581

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE24626_RAW.tar 19.9 Mb (http)(custom) TAR (of PAIR)
Processed data included within Sample table

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