SARS-CoV-2 human T cell epitopes: Adaptive immune response against COVID-19

A Grifoni, J Sidney, R Vita, B Peters, S Crotty… - Cell host & …, 2021 - cell.com
Over the past year, numerous studies in the peer reviewed and preprint literature have
reported on the virological, epidemiological and clinical characteristics of the coronavirus …

SARS-CoV-2 gene content and COVID-19 mutation impact by comparing 44 Sarbecovirus genomes

I Jungreis, R Sealfon, M Kellis - Nature communications, 2021 - nature.com
Despite its clinical importance, the SARS-CoV-2 gene set remains unresolved, hindering
dissection of COVID-19 biology. We use comparative genomics to provide a high …

[HTML][HTML] Immunodominance complexity: lessons yet to be learned from dominant T cell responses to SARS-COV-2

D Wellington, Z Yin, BM Kessler, T Dong - Current Opinion in Virology, 2021 - Elsevier
Immunodominance is a complex and highly debated topic of T cell biology. The current
SARS-CoV-2 pandemic has provided the opportunity to profile adaptive immune responses …

Weighted gene co-expression network analysis combined with machine learning validation to identify key modules and hub genes associated with SARS-CoV-2 …

H Karami, A Derakhshani, M Ghasemigol… - Journal of clinical …, 2021 - mdpi.com
The coronavirus disease-2019 (COVID-19) pandemic has caused an enormous loss of lives.
Various clinical trials of vaccines and drugs are being conducted worldwide; nevertheless …

Genes with 5′ terminal oligopyrimidine tracts preferentially escape global suppression of translation by the SARS-CoV-2 Nsp1 protein

S Rao, I Hoskins, T Tonn, PD Garcia, H Ozadam… - Rna, 2021 - rnajournal.cshlp.org
Viruses rely on the host translation machinery to synthesize their own proteins.
Consequently, they have evolved varied mechanisms to co-opt host translation for their …

Host-virus chimeric events in SARS-CoV-2-infected cells are infrequent and artifactual

B Yan, S Chakravorty, C Mirabelli, L Wang… - Journal of …, 2021 - Am Soc Microbiol
The pathogenic mechanisms underlying severe SARS-CoV-2 (severe acute respiratory
syndrome coronavirus 2) infection remain largely unelucidated. High-throughput …

Individual HLA-A, -B, -C, and -DRB1 Genotypes Are No Major Factors Which Determine COVID-19 Severity

J Schetelig, F Heidenreich, H Baldauf, S Trost… - Frontiers in …, 2021 - frontiersin.org
HLA molecules are key restrictive elements to present intracellular antigens at the
crossroads of an effective T-cell response against SARS-CoV-2. To determine the impact of …

[HTML][HTML] Integration of omics data to generate and analyse COVID-19 specific genome-scale metabolic models

T Režen, A Martins, M Mraz, N Zimic, D Rozman… - Computers in biology …, 2022 - Elsevier
COVID-19 presents a complex disease that needs to be addressed using systems medicine
approaches that include genome-scale metabolic models (GEMs). Previous studies have …

MS-based HLA-II peptidomics combined with multiomics will aid the development of future immunotherapies

HB Taylor, S Klaeger, KR Clauser, S Sarkizova… - Molecular & Cellular …, 2021 - ASBMB
Immunotherapies have emerged to treat diseases by selectively modulating a patient's
immune response. Although the roles of T and B cells in adaptive immunity have been well …

Features of HLA class I expression and its clinical relevance in SARS‐CoV‐2: What do we know so far?

A Bouayad - Reviews in Medical Virology, 2021 - Wiley Online Library
Modifications in HLA‐I expression are found in many viral diseases. They represent one of
the immune evasion strategies most widely used by viruses to block antigen presentation …