Towards a PBMC "virogram assay" for precision medicine: Concordance between ex vivo and in vivo viral infection transcriptomes

Journal of Biomedical Informatics
Vincent GardeuxYves A Lussier

Abstract

Understanding individual patient host-response to viruses is key to designing optimal personalized therapy. Unsurprisingly, in vivo human experimentation to understand individualized dynamic response of the transcriptome to viruses are rarely studied because of the obvious limitations stemming from ethical considerations of the clinical risk. In this rhinovirus study, we first hypothesized that ex vivo human cells response to virus can serve as a proxy for otherwise controversial in vivo human experimentation. We further hypothesized that the N-of-1-pathways framework, previously validated in cancer, can be effective in understanding the more subtle individual transcriptomic response to viral infection. N-of-1-pathways computes a significance score for a given list of gene sets at the patient level, using merely the 'omics profiles of two paired samples as input. We extracted the peripheral blood mononuclear cells (PBMC) of four human subjects, aliquoted in two paired samples, one subjected to ex vivo rhinovirus infection. Their dysregulated genes and pathways were then compared to those of 9 human subjects prior and after intranasal inoculation in vivo with rhinovirus. Additionally, we developed the Similarity Venn Diagram, a ...Continue Reading

References

Dec 11, 1999·Nucleic Acids Research·M Kanehisa, S Goto
Jul 1, 2005·Cell Research·Andrea K PerryGenhong Cheng
Oct 4, 2005·Proceedings of the National Academy of Sciences of the United States of America·Aravind SubramanianJill P Mesirov
Nov 19, 2009·Nucleic Acids Research·UNKNOWN Gene Ontology Consortium
May 7, 2010·Journal of Virology·Pablo R MurciaJames L N Wood
Jan 27, 2012·Journal of the American Medical Informatics Association : JAMIA·Haiquan LiYves A Lussier
Feb 1, 2012·PLoS Computational Biology·Xinan YangYves A Lussier
Jun 14, 2012·PLoS Pathogens·Pablo R MurciaJames L N Wood
Jul 17, 2013·BMC Medical Genomics·James L ChenYves A Lussier
Nov 12, 2013·Nucleic Acids Research·Minoru KanehisaMao Tanabe
Oct 11, 2014·Journal of the American Medical Informatics Association : JAMIA·Vincent GardeuxYves A Lussier

❮ Previous
Next ❯

Citations

May 14, 2016·Cell Host & Microbe·Angela L Rasmussen, Michael G Katze
May 30, 2017·Statistical Methods in Medical Research·A Grant SchisslerYves A Lussier
Dec 19, 2018·American Journal of Respiratory and Critical Care Medicine·Anya C JonesPatrick G Holt
Dec 23, 2016·Journal of Biomedical Informatics·Qike LiYves A Lussier

❮ Previous
Next ❯

Related Concepts

Related Feeds

Acute viral rhinopharyngitis

Acute viral rhinopharyngitis, also known as "common cold", is an acute, self-limiting viral infection of the upper respiratory tract involving the nose, sinuses, pharynx and larynx. Discover the latest research on acute viral rhinopharyngitis here.

Related Papers

Journal of General Internal Medicine
Richard L Kravitz
Journal of Dental Research
Herschel S Horowitz
The Journal of Clinical Pharmacology and New Drugs
Joel E Bernstein
© 2021 Meta ULC. All rights reserved