About: Upper airway gene expression differentiates COVID-19 from other acute respiratory illnesses and reveals suppression of innate immune responses by SARS-CoV-2

Facets (new session)
Description
Metadata
Settings
- owl:sameAs
- Inference Rule:

About: Upper airway gene expression differentiates COVID-19 from other acute respiratory illnesses and reveals suppression of innate immune responses by SARS-CoV-2 Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : covidontheweb.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Upper airway gene expression differentiates COVID-19 from other acute respiratory illnesses and reveals suppression of innate immune responses by SARS-CoV-2
Creator	Langelier, Charles Christenson, Stephanie Calfee, Carolyn Derisi, Joseph Kistler, Amy Renuka Kumar, G Li, Lucy Neff, Norma Shah, Sachin Tan, Michelle Babik, Jennifer Kangelaris, Kirsten Detweiler, Angela Hao, Samantha Kamm, Jack Mann, Sabrina Mick, Eran Prasad, Priya Ratnasiri, Kalani Spottiswoode, Natasha Castañeda, Gloria Serpa, Paula Oliveira Pisco, Angela
Source	MedRxiv; Medline; PMC
abstract	We studied the host transcriptional response to SARS-CoV-2 by performing metagenomic sequencing of upper airway samples in 238 patients with COVID-19, other viral or non-viral acute respiratory illnesses (ARIs). Compared to other viral ARIs, COVID-19 was characterized by a diminished innate immune response, with reduced expression of genes involved in toll-like receptor and interleukin signaling, chemokine binding, neutrophil degranulation and interactions with lymphoid cells. Patients with COVID-19 also exhibited significantly reduced proportions of neutrophils and macrophages, and increased proportions of goblet, dendritic and B-cells, compared to other viral ARIs. Using machine learning, we built 26-, 10- and 3-gene classifiers that differentiated COVID-19 from other acute respiratory illnesses with AUCs of 0.980, 0.950 and 0.871, respectively. Classifier performance was stable at low viral loads, suggesting utility in settings where direct detection of viral nucleic acid may be unsuccessful. Taken together, our results illuminate unique aspects of the host transcriptional response to SARS-CoV-2 in comparison to other respiratory viruses and demonstrate the feasibility of COVID-19 diagnostics based on patient gene expression.
has issue date	2020-05-22(xsd:dateTime)
bibo:doi	10.1101/2020.05.18.20105171
bibo:pmid	32511476
has license	cc-by-nc-nd
sha1sum (hex)	e816f38b9a3460a981491b43a9181cb4f921d408
schema:url	https://doi.org/10.1101/2020.05.18.20105171
resource representing a document's title	Upper airway gene expression differentiates COVID-19 from other acute respiratory illnesses and reveals suppression of innate immune responses by SARS-CoV-2
has PubMed Central identifier	PMC7273244
has PubMed identifier	32511476
schema:publication	medRxiv
resource representing a document's body	covid:e816f38b9a3460a981491b43a9181cb4f921d408#body_text
is schema:about of	named entity 'acid' named entity 'settings' named entity 'metagenomic' named entity 'SARS-CoV-2' named entity 'acute' named entity 'lymphoid cells' named entity 'gene' named entity 'UNIQUE' named entity 'DENDRITIC' named entity 'PATIENTS' named entity 'ILLNESSES' named entity 'EXPRESSION' named entity 'PATIENT' named entity 'samples' named entity 'viral' named entity 'viruses' named entity 'respiratory' named entity 'ARIs' named entity 'aspects' named entity 'based' named entity 'gene' named entity 'COVID-19' named entity 'loads' named entity 'transcriptional' named entity 'upper airway' named entity 'patient' named entity 'reduced' named entity 'SARS-CoV-2' named entity 'dendritic' named entity 'expression of genes' named entity 'acute respiratory illnesses' named entity 'ARIs' named entity 'lymphoid cells' named entity 'acute respiratory illnesses' named entity 'COVID' named entity 'B-cells' named entity 'metagenomic sequencing' named entity 'degranulation' named entity 'upper airway' named entity 'gene expression' named entity 'SARS-CoV-2' named entity 'COVID' named entity 'ARIs' named entity 'human lung' named entity 'tested positive' named entity 'ciliated cell' named entity 'false negatives' named entity 'nucleotide' named entity 'interferon' named entity 'IL1B' named entity 'acute respiratory illnesses' named entity 'ARIs' named entity 'Bonferroni correction' named entity 'ENSEMBL' named entity 'medRxiv' named entity 'DNase' named entity 'gene' named entity 'membrane-bound' named entity 'gene'

Faceted Search & Find service v1.13.91 as of Mar 24 2020

Alternative Linked Data Documents: Sponger | ODE Content Formats:

RDF

ODATA

Microdata

About

OpenLink Virtuoso version 07.20.3229 as of Jul 10 2020, on Linux (x86_64-pc-linux-gnu), Single-Server Edition (94 GB total memory)
Data on this page belongs to its respective rights holders.
Virtuoso Faceted Browser Copyright © 2009-2024 OpenLink Software