Systems Virology Lethal Human Virus, SARS-CoV Experiment SCL008

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Systems Virology Lethal Human Virus, SARS-CoV Experiment SCL008

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The purpose of this SARS experiment was to obtain samples for transcriptome and proteome analysis in human lung 2B4 cells (clonal derivative of Calu-3 cells) infected with either icSARS CoV, icSARS-deltaNSP16 or icSARS ExoNI mutants in a longitudinal study. 

Overall Design: Human lung tissue 2B4 cells (clonal derivatives of Calu-3 cells) were infected with either icSARS CoV, icSARS deltaNSP16 or icSARS ExoNI (wild type and deltaNSP16 mutant infections were at an MOI of 5 while the ExoNI infections were at an MOI of 1). Each infected sample was done in triplicate (triplicates are defined as 3 different wells at the same time using the same cell stock for all replicates), including time-matched mocks in parallel using the same cell stock as rest of samples. Time points used were: 0, 7, 12, 24, 30, 36, 48, 60, and 72 hrs post infection.

Processed Omics Data (available at download button):

Dataset downloads contain one or more statistically processed data file related to a lipidomic, transcriptomic, metabolomic, and/or proteomic dataset collection associated with the SARS experimental study.

 

Transcriptomics

mRNA

Proteomics

Related Experimental Data

BioProject:  PRJNA208996

GEO:  GSE48142

Peptide Atlas:  PASS00432 (PNNL Systems Virology Contract Data)

Host Factor Experiment(s):  SCL008-RSCL008-P, SCL008 Metadata (Proteomics) (ViPR, NIAID Systems Biology)

English
Projects (2)
Omics-Lethal Human Viruses, SARS
NIAID Systems Biology for Infectious Diseases Research Program Processed Data
Publications (1)
Hypergraph models of biological networks to identify genes critical to pathogenic viral response
People (3)

Lindsey Anderson’s research has been dedicated to the identification and characterization of novel, targeted and non-targeted, functional metabolic interactions using a high-throughput systems biology and computational biology approach. Her expertise in functional metabolism and multidisciplinary...

Dr. Jason McDermott, senior research scientist, has extensive research experience in molecular and structural virology and data resource design, data integration and prediction of biological networks, bridging experimental and computational biology. Currently, his research interests include data...

Dr. Katrina Waters is the division director for Biological Sciences at the Pacific Northwest National Laboratory. Waters has a Ph.D. in biochemistry and more than 15 years of experience in microarray and proteomics data analysis. Her research interests are focused on the integration of genomics...