Author

A. D. Swafford

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

Biology Disciplines

Click to filter author papers

Microbiology· 3 Ecology· 1

Signature Assays, Organisms & Methods

Click to filter · or open tag

Approach:experimental assay· 3 Assay:metagenomics· 3 Research Focus:benchmarking· 2 Organism:human· 2 Research Focus:clustering· 1 Research Focus:differential expression· 1 Research Focus:host-pathogen & immune response· 1 Approach:machine learning (classical)· 1

Frequent Co-Authors

R. Knight· 4 shared C. Martino· 2 shared C. S. Carpenter· 2 shared D. McDonald· 2 shared G. Humphrey· 2 shared J. P. Shaffer· 2 shared K. Sanders· 2 shared L. S. Zaramela· 2 shared

Activity by Year

2019-2022 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 40 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

4 shared papersMicrobiology

R. Knight

Mutual co-authors in cluster

Author profile →

4 papers

Recent·Most cited

A comparison of six DNA extraction protocols for 16S, ITS, and shotgun metagenomic sequencing of microbial communities

J. P. Shaffer, C. S. Carpenter, C. P. Martino, R. A. Salido, M. Bryant, K. Sanders, T. Schwartz, G. Humphrey, A. D. Swafford, R. Knight

The paper compares six DNA extraction protocols for 16S, ITS, and shotgun metagenomic sequencing, finding the MagMAX Microbiome kit performs best across multiple criteria.

bioRxiv · Mar 7, 2022Microbiology

A comparison of DNA/RNA extraction protocols for high-throughput sequencing of microbial communities

J. P. Shaffer, C. Marotz, P. Belda-Ferre, C. Martino, S. Wandro, M. Estaki, R. A. Salido, C. S. Carpenter, L. S. Zaramela, J. J. Minich, M. B. Bryant, K. Sanders, S. Fraraccio, G. Ackermann, G. Humphrey, , R. Knight

The paper compares DNA/RNA extraction protocols for microbial community sequencing, finding one protocol equivalent or better than a standard DNA-only method for RNA-based organisms.

bioRxiv · Nov 13, 2020Ecology

Bacterial modification of the host glycosaminoglycan heparan sulfate modulates SARS-CoV-2 infectivity

C. Martino, B. P. Kellman, D. R. Sandoval, T. M. Clausen, C. A. Marotz, S. J. Song, S. Wandro, L. S. Zaramela, R. A. Salido Benitez, Q. Zhu, E. Armingol, Y. Vazquez-Baeza, D. McDonald, J. T. Sorrentino, B. Taylor, , R. Knight

This study shows that commensal bacteria modify heparan sulfate, reducing SARS-CoV-2 spike protein binding and that this bacterial presence decreases with age, increasing COVID-19 susceptibility.

bioRxiv · Aug 17, 2020 · PreprintMicrobiology

Age and sex-dependent patterns of gut microbial diversity in human adults

J. de la Cuesta-Zuluaga, S. T. Kelley, Y. Chen, J. S. Escobar, N. T. Mueller, R. E. Ley, D. McDonald, S. Huang, A. D. Swafford, R. Knight, V. Thackray

The paper examines age and sex effects on gut microbial diversity across four adult cohorts, finding age-related diversity increases in young adults and sex differences in some groups.

bioRxiv · Feb 22, 2019Microbiology