NGS Diagnostic in COVID-19 Hosts - Genetic Cause Relating to the Course of Disease Progression (COVID-19 NGS)
COVID-19
About this trial
This is an interventional diagnostic trial for COVID-19 focused on measuring COVID-19, SARS-CoV-2, Next-Generation-Sequencing, Whole Genome Analysis, MultiOmics, Extreme phenotypes
Eligibility Criteria
Inclusion Criteria:
- COVID-19 infection confirmed
- COVID-19 disease manifestation
- Age > 18 years
Exclusion Criteria:
- Missing informed consent of the patient/ legal guardian/ relatives
Sites / Locations
- University Hospital TübingenRecruiting
Arms of the Study
Arm 1
Arm 2
Arm 3
Other
Other
Other
Host Genome Analysis
Host Response to SARS-CoV-2 Infection
Viral Sequence Composition
For 150 patients from the extreme phenotypes - complementary to Whole Genome Analysis of each patient also Whole Transcriptome will performed Analysis; DNA methylation analysis using EPIC arrays will be performed in the pilot study (phase 1). Identically, in phase 2 starting from month 4, will be generated WGS, Whole transcriptome sequencing (WTS), and methylation data of the 500 patients. Epigenetic changes are likely to occur upon Corona infection. Subsequently, genome and epigenome data with RNA expression pattern will be correlated.
Focus on longitudinal analysis of TCR repertoire of CD4+ and CD8+ T cells from blood samples (PBMCs) from clinically characterized patients (n = 24). The bulk- T-cell receptor (TCR) sequencing will be performed at different time points during the course of disease progression and recovery.
The Severe Acute Respiratory Syndrome-Corona Virus-2 (SARS-CoV-2) viral composition is determined by Next Generation sequencing (different protocols for enrichment are available, and are currently being tested to successfully analyse the virus from different isolates). It is known that SARS-CoV-2 sequence is changing at least one position every second passing from person to person. Numerous variants have been described deriving from 3 different ancestral viruses (named A, B, and C) reflecting different distributions in East Asia, Europeans and Americans. At it is anticipated that other (super)infections may add to the severity of the infection and disease course, the entire metagenome of the throat is being sequenced and analyzed as well.