Statistical challenges in the analysis of sequence and structure data for the COVID-19 spike protein Article Swipe
Shiyu He
,
Samuel W. K. Wong
·
YOU?
·
· 2021
· Open Access
·
· DOI: https://doi.org/10.48550/arxiv.2101.02304
YOU?
·
· 2021
· Open Access
·
· DOI: https://doi.org/10.48550/arxiv.2101.02304
As the major target of many vaccines and neutralizing antibodies against SARS-CoV-2, the spike (S) protein is observed to mutate over time. In this paper, we present statistical approaches to tackle some challenges associated with the analysis of S-protein data. We build a Bayesian hierarchical model to study the temporal and spatial evolution of S-protein sequences, after grouping the sequences into representative clusters. We then apply sampling methods to investigate possible changes to the S-protein's 3-D structure as a result of commonly observed mutations. While the increasing spread of D614G variants has been noted in other research, our results also show that the co-occurring mutations of D614G together with S477N or A222V may spread even more rapidly, as quantified by our model estimates.
Related Topics
Concepts
Spike Protein
Spike (software development)
Coronavirus disease 2019 (COVID-19)
Bayesian probability
Computational biology
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)
2019-20 coronavirus outbreak
Sequence (biology)
Statistical analysis
Biology
Mutation
Computer science
Genetics
Artificial intelligence
Statistics
Virology
Mathematics
Medicine
Gene
Infectious disease (medical specialty)
Disease
Outbreak
Pathology
Software engineering
Metadata
- Type
- preprint
- Language
- en
- Landing Page
- http://arxiv.org/abs/2101.02304
- https://arxiv.org/pdf/2101.02304
- OA Status
- green
- References
- 37
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W3120515476
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W3120515476Canonical identifier for this work in OpenAlex
- DOI
-
https://doi.org/10.48550/arxiv.2101.02304Digital Object Identifier
- Title
-
Statistical challenges in the analysis of sequence and structure data for the COVID-19 spike proteinWork title
- Type
-
preprintOpenAlex work type
- Language
-
enPrimary language
- Publication year
-
2021Year of publication
- Publication date
-
2021-01-06Full publication date if available
- Authors
-
Shiyu He, Samuel W. K. WongList of authors in order
- Landing page
-
https://arxiv.org/abs/2101.02304Publisher landing page
- PDF URL
-
https://arxiv.org/pdf/2101.02304Direct link to full text PDF
- Open access
-
YesWhether a free full text is available
- OA status
-
greenOpen access status per OpenAlex
- OA URL
-
https://arxiv.org/pdf/2101.02304Direct OA link when available
- Concepts
-
Spike Protein, Spike (software development), Coronavirus disease 2019 (COVID-19), Bayesian probability, Computational biology, Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), 2019-20 coronavirus outbreak, Sequence (biology), Statistical analysis, Biology, Mutation, Computer science, Genetics, Artificial intelligence, Statistics, Virology, Mathematics, Medicine, Gene, Infectious disease (medical specialty), Disease, Outbreak, Pathology, Software engineeringTop concepts (fields/topics) attached by OpenAlex
- Cited by
-
0Total citation count in OpenAlex
- References (count)
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37Number of works referenced by this work
- Related works (count)
-
10Other works algorithmically related by OpenAlex
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| referenced_works | https://openalex.org/W2546431897, https://openalex.org/W2158476854, https://openalex.org/W2039465334, https://openalex.org/W2130479394, https://openalex.org/W2122575836, https://openalex.org/W3087924281, https://openalex.org/W3084653951, https://openalex.org/W3199799076, https://openalex.org/W2892117196, https://openalex.org/W2904250115, https://openalex.org/W3010233963, https://openalex.org/W3039901154, https://openalex.org/W3104298728, https://openalex.org/W3044722686, https://openalex.org/W3013348202, https://openalex.org/W2078621233, https://openalex.org/W2016381774, https://openalex.org/W3081555037, https://openalex.org/W1996824979, https://openalex.org/W3007643904, https://openalex.org/W3043431476, https://openalex.org/W95014119, https://openalex.org/W3004280078, https://openalex.org/W3094918064, https://openalex.org/W2144416900, https://openalex.org/W3003217347, https://openalex.org/W3004348779, https://openalex.org/W3088793221, https://openalex.org/W3047785159, https://openalex.org/W2577537660, https://openalex.org/W2040138931, https://openalex.org/W3032355258, https://openalex.org/W3096916367, https://openalex.org/W2131046967, https://openalex.org/W2884424557, https://openalex.org/W3008443627, https://openalex.org/W3004202398 |
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