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Auto Summaries - Sequence
Last updated: 2022 Jan 4
Total hit(s): 1383
S.No.
1
34890524
The significant immune escape of pseudotyped SARS-CoV-2 variant Omicron
The emergence of Omicron/BA.1 has brought new challenges to fight against SARS-CoV-2. A large number of mutations in the Spike protein suggest that its susceptibility to immune protection elicited by the existing COVID-19 infection and vaccines may be altered.
Emerg Microbes Infect
2022 Dec
5.84
3
2
34931174
Striking lineage diversity of severe acute respiratory syndrome coronavirus 2 from non-human sources
From a set of 3595 publicly available SARS-CoV-2 genome sequences, 128 lineages were identified. Environment, Neovison vison, Odocoileus virginianus and Felis catus were the non-human sources with the highest number of lineages. Phylogenomic analyses showed viral clusters from environmental sources, including those from bats and pangolins.
One Health
2022 Jun
3.81
1
3
34907114
Prevalence of a Single-Nucleotide Variant of SARS-CoV-2 in Korea and Its Impact on the Diagnostic Sensitivity of the Xpert Xpress SARS-CoV-2 Assay
N/A
Ann Lab Med
2022 May 1
2.81
1
4
34907107
Incidence Evaluation of SARS-CoV-2 Variants in the Ulsan Area, Korea, Using PowerChek SARS-CoV-2 S-gene Mutation Detection Kit: A Pilot Study
Department of Laboratory Medicine, University of Ulsan College of Medicine, is a Korean hospital. It was founded in the 1950s and has been used as a research institution for more than 30 years. The lab results have been published on numerous occasions by South Korea's leading scientists.
Ann Lab Med
2022 May 1
2.81
1
5
34690450
A biological sub-sequences detection using integrated BA-PSO based on infection propagation mechanism: Case study COVID-19
The longest common consecutive subsequences (LCCS) play a vital role in revealing the biological relationships between DNA/RNA sequences especially the newly discovered ones such as COVID-19. FLAT is a Fragmented local aligner technique which is an accelerated version of the local pairwise sequence alignment algorithm based on meta-heuristic algorithms. This paper introduces a modified version of FLAT based on improving the performance of the BA algorithm by integration with particle swarm optimization (PSO) algorithm. It has a preponderance to find the LCCS with the highest percentage (88%) which is better than other state-of-the-art methods.
Expert Syst Appl
2022 Mar 1
5.89
2
6
34697506
Structure-property relationship in thioxotriaza-spiro derivative: Crystal structure and molecular docking analysis against SARS-CoV-2 main protease
Structure and non-covalent interactions in thioxotriaza-spiroderivative (DZ2) are investigated by single crystal structure anslysis and computational approaches. The binding affinity of -6.7kcal/mol is observed, attributed to hydrogen bonding and hydrophobic interactions between the ligand and amino acid residues of the receptor.
J Mol Struct
2022 Feb 15
2.19
1
7
34745319
ENResNet: A novel residual neural network for chest X-ray enhancement based COVID-19 detection
It is very difficult to detect the virus infected chest X-ray (CXR) image during early stages due to constant gene mutation of the virus. The suggested ENResNet achieves a classification accuracy 99.7% and 98.4% for binary classification and multi-class detection respectively in comparison with state-of-the-art methods.
Biomed Signal Process Control
2022 Feb
3.83
1
8
34720412
Substitution of social sustainability concerns under the Covid-19 pandemic
The WHO Covid-19 Solidarity Response Fund significantly reduces the sum of donations to the original eight charities in Austria. Results are robust to a 10-fold increase in endowment, with decisions made over 30 times. Overall, our results indicate that donations to diverse social concerns are partially substituted by donations to one fund; yet, this substitution does not fully replace all other social concerns.
Ecol Econ
2022 Feb
1
9
34931117
A novel ensemble fuzzy classification model in SARS-CoV-2 B-cell epitope identification for development of protein-based vaccine
B-cell epitope identification with the aid of an accurate prediction method is one of the most important steps in epitope-based vaccine development, immunodiagnostic testing, antibody production, disease diagnosis, and treatment. We hope that the developed epitope prediction method will help design effective vaccines and drugs against future outbreaks of the coronavirus family, especially SARS-CoV-2 and its possible mutations.
Appl Soft Comput
2022 Feb
6.03
1
10
34877480
Tracking the amino acid changes of spike proteins across diverse host species of severe acute respiratory syndrome coronavirus 2
SPIKES identified 20 informative physicochemical properties of the spike protein, including information measures for alpha helix and relative mutability, and amino acid and dipeptide compositions. We suggest that alterations of these amino acids between human and animal coronaviruses may provide insights into the development and transmission of SARS-CoV-2 in human and other species.
iScience
2022 Jan 21
4.447
1
11
34909610
Functional evaluation of the P681H mutation on the proteolytic activation of the SARS-CoV-2 variant B.1.1.7 (Alpha) spike
SARS-CoV-2 contains several mutations including P681H in the spike S1/S2 cleavage site, which is predicted to increase cleavage by furin. We performed assays using fluorogenic peptides mimicking the Wuhan-Hu-1 sequence and observed no significant difference in furin cleavage.
iScience
2022 Jan 21
4.447
2
12
34898691
Molecularly imprinted polypyrrole based sensor for the detection of SARS-CoV-2 spike glycoprotein
Study describes the application of a polypyrrole-based sensor for the determination of SARS-CoV-2-S spike glycoprotein. The study was dedicated to the development of an electrochemical determination method. A sensor based on polymer layers was evaluated by pulsed amperometric detection.
Electrochim Acta
2022 Jan 20
1
13
34740719
Identification of genotypic variants and its proteomic mutations of Brazilian SARS-CoV-2 isolates
The second wave of COVID-19 caused by severe acute respiratory syndrome virus (SARS-CoV-2) is rapidly spreading over the world. Mechanisms behind the flee from current antivirals are still unclear due to the continuous occurrence of genetic variants. Brazil is the world's second-most affected country.
Virus Res
2022 Jan 2
2.6
1
14
34863825
Emergence of unique SARS-CoV-2 ORF10 variants and their impact on protein structure and function
The SARS-CoV-2 open reading frame 10 (ORF10) protein interacts with multiple human proteins CUL2, ELOB, ELOC, MAP7D1, PPT1, RBX1, THTPA, TIMM8B, and ZYG11B expressed in lung tissue. Mutations and co-occurring mutations are expected to impact the severity of the virus and its associated consequences.
Int J Biol Macromol
2022 Jan 1
4.94
1
15
34374354
Prevalence of a Single-Nucleotide Variant of SARS-CoV-2 in Korea and Its Impact on the Diagnostic Sensitivity of the Xpert Xpress SARS-CoV-2 Assay
We report a single-nucleotide variant (SNV) in the nucleocapsid (N) gene of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), i.e., G29179T. This SNV impairs the diagnostic sensitivity of the Xpert Xpress SARS-Cov-2 assay (Cepheid, Sunnyvale, CA, USA)
Ann Lab Med
2022 Jan 1
2.81
1
16
34909634
Severe breakthrough COVID-19 with a heavily mutated variant in a multiple myeloma patient 10 weeks after vaccination
Patients with multiple myeloma have unpredictable responses to vaccination for COVID-19. Anti-spike antibody levels can determine which patients develop antibodies at levels similar to healthy controls, and are a known correlate of protection. Serology testing showed a dramatic decline in anti-spikes antibodies immediately prior to virus exposure.
Clin Infect Pract
2022 Jan
Cant find
2
17
34915409
E484K and N501Y SARS-CoV 2 spike mutants Increase ACE2 recognition but reduce affinity for neutralizing antibody
SARS-CoV2 mutants have a key mutation N501Y. E484K mutant has higher affinity due to improved - stacking and -cation interactions with ACE2. The insights obtained from the study are crucial to interpret the increased transmissibility and reduced neutralization efficacy of rapidly emerging VOCs.
Int Immunopharmacol
2022 Jan
3.38
1
18
34393277
Pareto optimization of deep networks for COVID-19 diagnosis from chest X-rays
The year 2020 was characterized by the COVID-19 pandemic that has caused, by the end of March 2021, more than 2.5 million deaths worldwide. Since the beginning, besides the laboratory test, used as the gold standard, many applications have been applying deep learning algorithms to chest X-ray images to recognize patients. A wide set of experiments on several publicly available datasets, accounting for more than 92,000 images, shows that the proposed approach provides average recognition rates up to 93.54% when tested on external datasets.
Pattern Recognit
2022 Jan
7.35
2
19
34748815
In vitro evaluation of the effect of mutations in primer binding sites on detection of SARS-CoV-2 by RT-qPCR
As the SARS-CoV-2 pandemic progresses, the virus accrues mutations. If mutations occur in primer or probe binding sites, this can impact RT-qPCR results. The effects of the mismatches ranged from a shift in ct values from -0.13 to +7.61.
J Virol Methods
2022 Jan
1.76
1
20
34773624
PCR Primer Design for the Rapidly Evolving SARS-CoV-2 Genome
Real-time quantitative PCR is currently the most widely used method for the human pathogen severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) identification. Novel mutations on the primer binding sites will cause the failure of a well-designed primer set.
Methods Mol Biol
2022
10.71
1
21
34914043
Status of COVID-19 Pandemic Before the Administration of Vaccine
SARS-CoV-2 is responsible for the disease COVID-19 that has decimated the health and economy of our planet. The virus causes the disease not only in people but also in companion and wild animals. As yet we do not know why the virus is highly successful in causing the pandemic within 3months of its first report.
Methods Mol Biol
2022
10.71
1
22
34926142
Acute liver failure after vaccination against of COVID-19; a case report and review literature
Thrombotic events have been reported as a rare side effect after ChAdox1nCOV-19 vaccination that may cause death of recipient. Case of hepatic artery occlusion after the first dose vaccination by ChAdOx1nCov-19.
Respir Med Case Rep
2022
0.79
1
23
34909772
Minimal cross-over between mutations associated with Omicron variant of SARS-CoV-2 and CD8+ T cell epitopes identified in COVID-19 convalescent individuals
There is a growing concern that ongoing evolution of SARS-CoV-2 could lead to variants of concern (VOC) that are capable of avoiding some or all of the multi-faceted immune response generated by both prior infection or vaccination. This study examined if the parts of the virus, or epitopes, targeted by the CD8+ T-cell response in thirty individuals who recovered from COVID-19 in 2020 were mutated in the Omicron variant.
bioRxiv
2021 Dec 9
N/A
1
24
34881982
SARS-CoV-2 Genome Sequences, Including One with an ORF7a Deletion, Obtained from Patients in Bangladesh
Genomic sequences from a complete SARS-CoV-2 open reading frame (ORF) were obtained from 24 patients diagnosed in May 2020 in Dhaka, Bangladesh. All sequences belonged to clade 20A or 20B, and none were variants of concern. Interestingly, one sequence showed a 161-nucleotide deletion in ORF7a.
Microbiol Resour Announc
2021 Dec 9
0.88
1
25
34896524
A comprehensive overview of identified mutations in SARS CoV-2 spike glycoprotein among Iranian patients
The reported mutations in the current project have practical significance in prediction of disease spread as well as design of vaccines and drugs. We found that the four current VOCs - Alpha, Beta, Gamma and Delta - are circulated in different regions in Iran. Delta variant is notably more transmissible than other variants, and is expected to become a dominant variant.
Gene
2021 Dec 9
2.71
1