STANDARD_NAME	ARMIGNACCO_SEVERE_COVID19_RISK_EN_NEG
SYSTEMATIC_NAME	M49137
COLLECTION	C2:CGP
MSIGDB_URL	https://www.gsea-msigdb.org/gsea/msigdb/human/geneset/ARMIGNACCO_SEVERE_COVID19_RISK_EN_NEG
NAMESPACE	HUMAN_GENE_SYMBOL
DESCRIPTION_BRIEF	Negative Elastic Net coefficient component of Forty-eight genes properly discriminating severe from mild evolution of COVID-19 pneumonia in the validation cohort (Elastic Net-penalized linear model).
DESCRIPTION_FULL	COVID-19 is associated with heterogeneous outcome. Early identification of a severe progression of the disease is essential to properly manage the patients and improve their outcome. Biomarkers reflecting an increased inflammatory response, as well as individual features including advanced age, male gender, and pre-existing comorbidities, are risk factors of severe COVID-19. Yet, these features show limited accuracy for outcome prediction. The aim was to evaluate the prognostic value of whole blood transcriptome at an early stage of the disease. Blood transcriptome of patients with mild pneumonia was profiled. Patients with subsequent severe COVID-19 were compared to those with favourable outcome, and a molecular predictor based on gene expression was built. Unsupervised classification discriminated patients who would later develop a COVID-19-related severe pneumonia. The corresponding gene expression signature reflected the immune response to the viral infection dominated by a prominent type I interferon, with IFI27 among the most over-expressed genes. A 48-genes transcriptome signature predicting the risk of severe COVID-19 was built on a training cohort, then validated on an external independent cohort, showing an accuracy of 81% for predicting severe outcome. These results identify an early transcriptome signature of severe COVID-19 pneumonia, with a possible relevance to improve COVID-19 patient management.
PMID	38772950
GEOID	
AUTHORS	Armignacco R,Carlier N,Jouinot A,Birtolo MF,de Murat D,Tubach F,Hausfater P,Simon T,Gorochov G,Pourcher V,Beurton A,Goulet H,Manivet P,Bertherat J,Assié G,COVIDeF group
CONTRIBUTOR	Anthony Castanza
CONTRIBUTOR_ORG	MSigDB Team
EXACT_SOURCE	Supplementary Table S11. Supplementary file19 10142_2024_1359_MOESM19_ESM, Elastic Net coef < 0
FILTERED_BY_SIMILARITY	
EXTERNAL_NAMES_FOR_SIMILAR_TERMS	
EXTERNAL_DETAILS_URL	https://link.springer.com/article/10.1007/s10142-024-01359-2
SOURCE_MEMBERS	ADGRD1,ADGRE4P,ARPIN,CACNA2D3,CASS4,CHRM3-AS2,DYRK2,EFCAB14,GOLGA8B,KNDC1,LINC01891,LKAAEAR1,MRAS,MS4A14,MTX3,NEURL1,OLFM1,PGA3,PID1,RTN1,SMIM11B,SUSD4,TNFRSF9,TPPP3,VN1R1,ZDHHC1,ZNF469,ZNF703
GENE_SYMBOLS	ADGRD1,ADGRE4P,ARPIN,CACNA2D3,CASS4,CHRM3-AS2,DYRK2,EFCAB14,GOLGA8B,KNDC1,LINC01891,LKAAEAR1,MRAS,MS4A14,MTX3,NEURL1,OLFM1,PGA3,PID1,RTN1,,SUSD4,TNFRSF9,TPPP3,VN1R1,ZDHHC1,ZNF469,ZNF703
FOUNDER_NAMES