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Series GSE109420 Query DataSets for GSE109420
Status Public on Jan 20, 2018
Title RNAseq comparison of HSV-1 KOS vs n199 infected cells
Organisms Homo sapiens; Human alphaherpesvirus 1
Experiment type Expression profiling by high throughput sequencing
Summary The abundance of HSV mRNAs was determines over 16h of infection in wt (KOS) and n199 (ICP22 mutant) infected cells. ICP22 is an immediate early gene of HSV that affects gene expression
Overall design 2 X 10E6 MRC5 cells were infected at an MOI of 10 PFU/cell. mRNA was isolated at different times post infection using Ambion RNaqueous-4PCR kit and quantified using an Agilent Eukaryotic RNA Nano kit and a 2100 bioanalyzer. Individual samples each with unit barcodes were quantified using an Agilent DNA 7500 chip an a 2100 bioanalyzer. Pooled multiplexed samples were sequenced at the Tufts University Genomics facility. The demulitplexed sequence read files were mapped to the HSV strain KOS genome and quantified using CLC Genomics Workbench.
Contributor(s) DeLuca N, Fox H
Citation(s) 28611249
Submission date Jan 19, 2018
Last update date Jan 25, 2018
Contact name Neal DeLuca
Phone 412 648-9947
Organization name Univ. of Pittsburgh
Lab BSPII room 547
Street address 450 Technology Dr
City Pittsburgh
State/province PA
ZIP/Postal code 15219
Country USA
Platforms (1)
GPL23890 Illumina HiSeq 2500 (Homo sapiens; Human alphaherpesvirus 1)
Samples (12)
GSM2942669 Sample 1_KOS-infected MRC5 cells_2h
GSM2942670 Sample 2_KOS-infected MRC5 cells_4h
GSM2942671 Sample 3_KOS-infected MRC5 cells_6h
BioProject PRJNA430862
SRA SRP131143

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Supplementary file Size Download File type/resource
GSE109420_KOS_2.xlsx 46.4 Kb (ftp)(http) XLSX
GSE109420_n199_2.xlsx 45.7 Kb (ftp)(http) XLSX
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Processed data are available on Series record

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