Bioinformatics

In silico analysis of predicted differential MHC binding and CD8+ T-cell immune escape of SARS-CoV-2 B.1.1.529 variant mutant epitopes

1. Pablo Riesgo-Ferreiro
2. Ranganath Gudimella
3. Thomas Bukur
4. Patrick Sorn
5. Thomas Rösler
6. Barbara Schrörs
7. Martin Löwer

Reviewed by ScreenIT

Analysis of receptors responsible for the dysfunction of the human immune system by different viral infections

1. Sergey M. Ivanov
2. Olga A. Tarasova
3. Vladimir V. Poroikov

Reviewed by ScreenIT

Rapid, Reference-Free human genotype imputation with denoising autoencoders

1. Raquel Dias
2. Doug Evans
3. Shang-Fu Chen
4. Kai-Yu Chen
5. Salvatore Loguercio
6. Leslie Chan
7. Ali Torkamani

• Curated by eLife

  Evaluation Summary:

  The paper describes a novel neural-network-based strategy for imputing unmeasured genotypes, which is standard part of most association testing pipelines. The method, while computationally intensive to train, can perform the imputation quickly and conveniently, and has the potential to be a practically-appealing alternative to existing methods. However, further work will be required to realize this potential, and further data are required to support the accuracy of the method.

  (This preprint has been reviewed by eLife. We include the public reviews from the reviewers here; the authors also receive private feedback with suggested changes to the manuscript. The reviewers remained anonymous to the authors.)

Reviewed by eLife

SARS-CoV-2 Omicron Variant AI-based Primers

1. Carmina A. Perez-Romero
2. Alberto Tonda
3. Lucero Mendoza-Maldonado
4. John MacSharry
5. Joanna Szafran
6. Eric Claassen
7. Johan Garssen
8. Aletta D. Kraneveld
9. Alejandro Lopez-Rincon

Reviewed by ScreenIT

Template-based design of peptides to inhibit SARS-CoV-2 RNA-dependent RNA polymerase complexation

1. Akshay Chenna
2. Wajihul H Khan
3. Rozaleen Dash
4. Anurag S Rathore
5. Gaurav Goel

Reviewed by ScreenIT

Structural insight into antibody evasion of SARS-CoV-2 omicron variant

1. Jyoti Verma
2. Naidu Subbarao

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The Existence of at Least Three Genomic Signature Patterns and at Least Seven Subtypes of COVID-19 and the End of the Disease

1. Zhengjun Zhang

Reviewed by ScreenIT

The N764K and N856K mutations in SARS-CoV-2 Omicron BA.1 S protein generate potential cleavage sites for SKI-1/S1P protease

1. Halim Maaroufi

Reviewed by ScreenIT

In Silico Analysis of the Effects of Omicron Spike Amino Acid Changes on the Interactions with Human Proteins

1. Nancy D’Arminio
2. Deborah Giordano
3. Bernardina Scafuri
4. Carmen Biancaniello
5. Mauro Petrillo
6. Angelo Facchiano
7. Anna Marabotti

Reviewed by ScreenIT

Outbreak.info Research Library: a standardized, searchable platform to discover and explore COVID-19 resources

1. Ginger Tsueng
2. Julia L. Mullen
3. Manar Alkuzweny
4. Marco Cano
5. Benjamin Rush
6. Emily Haag
7. Jason Lin
8. Dylan J. Welzel
9. Xinghua Zhou
10. Zhongchao Qian
11. Alaa Abdel Latif
12. Emory Hufbauer
13. Mark Zeller
14. Kristian G. Andersen
15. Chunlei Wu
16. Andrew I. Su
17. Karthik Gangavarapu
18. Laura D. Hughes

Reviewed by ScreenIT