Author

S. D. Shank

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Evolutionary Biology· 2

Signature Assays, Organisms & Methods

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Approach:statistical model· 2 Assay:bulk RNA-seq· 1 Research Focus:host-pathogen & immune response· 1 Organism:human· 1 Research Focus:variant effect prediction· 1 Organism:virus· 1 Assay:whole-genome sequencing· 1

Frequent Co-Authors

S. L. Kosakovsky Pond· 2 shared A. De Klerk· 1 shared A. G. Lucaci· 1 shared A. J. Greaney· 1 shared A. Nekrutenko· 1 shared A. Schuetz· 1 shared A. Sigal· 1 shared A. von Gottberg· 1 shared

Activity by Year

2018-2022 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 37 mutual co-author links

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2 shared papersEvolutionary Biology

S. L. Kosakovsky Pond

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2 papers

Recent·Most cited

Selection analysis identifies unusual clustered mutational changes in Omicron lineage BA.1 that likely impact Spike function

D. P. Martin, S. Lytras, A. G. Lucaci, W. Maier, B. Gruning, S. D. Shank, S. Weaver, O. S. MacLean, R. J. Orton, P. Lemey, M. F. Boni, H. Tegally, G. W. Harkins, C. Scheepers, J. N. Bhiman, , S. L. Kosakovsky Pond

The paper identifies 13 rare mutations in the Omicron S-gene that cluster in functionally important regions and likely impact Spike function, suggesting cooperative interactions that mitigate fitness costs.

bioRxiv · Jan 14, 2022 · PreprintEvolutionary Biology

Monocyte Infection Dynamics Shape HIV-1 Phyloanatomy in the Peripheral Blood

B. Rife Magalis, S. L. Strickland, S. D. Shank, P. Autissier, A. Schuetz, P. Sithinamsuwam, S. Lerdlum, J. L. K. Fletcher, M. de Souza, J. Ananworanich, V. Valcour, K. C. Williams, S. L. Kosakovsky Pond, S. Ratto Kim, M. Salemi, SEARCH007

This study shows that HIV-1 evolves differently in monocytes compared to T cells, suggesting monocytes may be a significant viral reservoir.

bioRxiv · Dec 12, 2018 · PreprintEvolutionary Biology