Author

A. K. Savage

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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Immunology· 5

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 4 Research Focus:differential expression· 4 Organism:human· 4 Approach:deep learning· 3 Approach:experimental assay· 3 Assay:scRNA-seq· 3 Assay:bulk RNA-seq· 2 Assay:flow cytometry· 2

Frequent Co-Authors

E. Swanson· 4 shared T. R. Torgerson· 4 shared X.-j. Li· 4 shared A. T. Heubeck· 3 shared C. Lord· 3 shared J. H. Buckner· 3 shared J. Reading· 3 shared L. T. Graybuck· 3 shared

Activity by Year

2020-2022 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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4 shared papersImmunology

E. Swanson

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Author profile →

5 papers

Recent·Most cited

PALMO: a comprehensive platform for analyzing longitudinal multi-omics data

S. V. Vasaikar, A. K. Savage, Q. Gong, E. Swanson, A. Talla, C. Lord, A. Heubeck, J. Reading, L. T. Graybuck, P. Meijer, T. R. Torgerson, P. Skene, T. Bumol, X.-j. Li

PALMO analyzes longitudinal multi-omics data by decomposing variations, identifying stable/variable features, and detecting markers across timepoints, validated on a complex dataset and external benchmarks.

bioRxiv · Oct 17, 2022 · PreprintImmunology

Distinct Heterogeneity in the Naive T cell Compartments of Children and Adults

C. E. Gustafson, Z. Thomson, Z. He, E. Swanson, K. Henderson, M.-P. L. Pebworth, L. Y. Okada, A. T. Heubeck, C. R. Roll, V. Hernandez, M. D. Weiss, P. C. Genge, J. Reading, J. R. Giles, S. Manne, , P. J. Skene

The study identifies age-related differences in naive T cell compartments between children and adults, showing distinct molecular reprogramming in CD4 and CD8 subsets.

bioRxiv · Oct 4, 2022 · PreprintImmunology

A simple strategy for sample annotation error detection in cytometry datasets

M. Smithmyer, A. E. Wiedeman, D. A. G. Skibinski, A. K. Savage, C. Acosta-Vega, S. Scheiding, V. H. Gersuk, S. A. Long, J. H. Buckner, C. Speake

The paper detects sample annotation errors in cytometry data by comparing HLA allele expression with longitudinal and qPCR data, identifying mismatches in 2.4% of samples.

bioRxiv · Oct 26, 2021Immunology

Multimodal Analysis for Human ex vivo Studies Shows Extensive Molecular Changes from Delays in Blood Processing

A. K. Savage, M. V. Gutschow, T. Chiang, K. Henderson, R. Green, M. Chaudhari, E. Swanson, A. T. Heubeck, N. Kondza, K. C. Burley, P. C. Genge, C. Lord, T. Smith, Z. Thomson, A. Beaubien, , T. F. Bumol

This study shows that delayed blood processing causes significant changes in single-cell transcriptomes and plasma proteomes within 6 hours, potentially confounding disease-related biological variance.

bioRxiv · Oct 18, 2020Immunology

TEA-seq: a trimodal assay for integrated single cell measurement of transcription, epitopes, and chromatin accessibility

E. Swanson, C. Lord, J. Reading, A. T. Heubeck, A. K. Savage, R. Green, X.-j. Li, T. R. Torgerson, T. F. Bumol, L. T. Graybuck, P. J. Skene

The paper introduces TEA-seq, a trimodal assay that integrates scRNA-seq, cell surface epitopes, and scATAC-seq to improve single-cell analysis of transcription, epitopes, and chromatin accessibility.

bioRxiv · Sep 4, 2020 · PreprintImmunology