Author

J. A. James

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· 4 Cancer Biology· 2

Signature Assays, Organisms & Methods

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Organism:human· 5 Research Focus:differential expression· 3 Approach:statistical model· 3 Research Focus:cell type annotation· 2 Approach:deep learning· 2 Approach:experimental assay· 2 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1

Frequent Co-Authors

J. M. Guthridge· 2 shared V. Bingham· 2 shared W. DeJager· 2 shared A. Arazi· 1 shared A. D. Farris· 1 shared A. Davidson· 1 shared A. Fava· 1 shared A. Gilmore· 1 shared

Activity by Year

2017-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 9 mutual co-author links

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2 shared papersImmunology

J. M. Guthridge

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Author profile →

6 papers

Recent·Most cited

Intrarenal myeloid subsets associated with kidney injury are comparable in mice and patients with lupus nephritis

P. Hoover, D. J. Lieb, J. Kang, S. Li, M. Peters, C. Raparia, A. Arazi, T. Eisenhaure, S. S. Gurajala, Q. Xiao, R. Mishra, M. Spurrell, R. Menon, M. Kretzler, J. Chen, , A. Davidson

This study identifies conserved myeloid subsets and disease-associated gene expression changes in kidney injury across lupus mouse models and human patients with lupus nephritis.

bioRxiv · Jun 24, 2023 · PreprintImmunology

Peptidoglycan from Bacillus anthracis Inhibits Human Macrophage Efferocytosis in Part by Reducing Cell Surface Expression of MERTK and TIM-3

J. S. Mytych, Z. Pan, C. Lopez-Davis, N. Redinger, C. Lawrence, J. Ziegler, N. I. Popescu, J. A. James, A. D. Farris

bioRxiv · Mar 30, 2023 · PreprintImmunology

Disease diagnostics using machine learning of immune receptors

M. E. Zaslavsky, E. Craig, J. K. Michuda, N. Sehgal, N. Ram-Mohan, J.-Y. Lee, K. D. Nguyen, R. A. Hoh, T. D. Pham, K. Röltgen, B. Lam, E. S. Parsons, S. R. Macwana, W. DeJager, E. M. Drapeau, , S. D. Boyd

The paper develops Mal-ID, a machine learning framework using immune receptor data to diagnose diseases, detecting infections, autoimmune disorders, and vaccine responses.

bioRxiv · Apr 26, 2022Immunology

Genetic load in incomplete lupus erythematosus

M. Slief, J. Kheir, M. Smith, C. Mowery, S. Macwana, W. DeJager, C. A. Wagner, T. Aberle, J. A. James, J. M. Guthridge

This study compares the genetic load of SLE risk alleles in ILE and SLE patients, finding comparable genetic predisposition despite phenotypic differences.

bioRxiv · Feb 14, 2022Immunology

HistoClean: Open-source Software for Histological Image Pre-processing and Augmentation to Improve Development of Robust Convolutional Neural Networks

K. D. McCombe, S. G. Craig, A. V. Pulsawatdi, J. I. Quezada-Marin, M. Hagan, S. Rajendran, M. P. Humphries, V. Bingham, M. Salto-Tellez, R. Gault, J. A. James

HistoClean is an open-source tool for histological image pre-processing and augmentation to enhance the robustness of convolutional neural networks in detecting stromal maturity.

bioRxiv · Jun 7, 2021Cancer Biology

Bcl-xL as a poor prognostic biomarker and predictor of response to adjuvant chemotherapy specifically in BRAF-mutant stage II and III colon cancer

P. D. Dunne, H. G. Coleman, P. Bankhead, M. Alderdice, R. T. Gray, S. McQuaid, V. Bingham, M. B. Loughrey, J. A. James, A. M. McCorry, A. Gilmore, C. Holohan, D. Klingbiel, S. Tejpar, P. G. Johnston, , M. Lawler

The paper identifies Bcl-xL as a prognostic biomarker and predictor of response to adjuvant chemotherapy in BRAF-mutant stage II/III colon cancer using gene expression and immunohistochemistry validation.

bioRxiv · Oct 23, 2017Cancer Biology