Author

J. Mathews

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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Cancer Biology· 3 Bioengineering· 1 Immunology· 1

Signature Assays, Organisms & Methods

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Approach:statistical model· 5 Assay:bulk RNA-seq· 3 Research Focus:cell type annotation· 3 Organism:human· 3 Approach:deep learning· 2 Research Focus:differential expression· 2 Research Focus:drug response / drug discovery· 2 Research Focus:gene regulatory network inference· 1

Frequent Co-Authors

M. Pouryahya· 4 shared A. Tannenbaum· 3 shared J. Deasy· 3 shared S. Nadeem· 2 shared A. Apte· 1 shared A. Iyer· 1 shared A. J. Levine· 1 shared A. R. Tannenbaum· 1 shared

Activity by Year

2017-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 23 mutual co-author links

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4 shared papersCancer Biology

M. Pouryahya

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Author profile →

5 papers

Recent·Most cited

Computing the inducibility of B cell lineages under a context-dependent model of affinity maturation: Applications to sequential vaccine design

J. Mathews, E. Van Itallie, K. Wiehe, S. Schmidler

The paper develops a computational model to estimate the inducibility of specific antibodies during vaccine design by simulating context-dependent mutation rates in B cell lineages.

bioRxiv · Oct 13, 2023Immunology

Optimal Mass Transport for Robust Texture Analysis

Z. Belkhatir, A. Iyer, J. Mathews, M. Pouryahya, S. Nadeem, J. Deasy, A. Apte, A. Tannenbaum

This paper introduces a texture analysis method using optimal mass transport to improve robustness in CT slice classification for head and neck cancer, outperforming random forest on scalar features.

bioRxiv · Nov 27, 2019 · PreprintBioengineering

Robust and Interpretable PAM50 Reclassification Exhibits Survival Advantage for Myoepithelial and Immune Phenotypes

J. Mathews, S. Nadeem, A. J. Levine, M. Pouryahya, J. O. Deasy, A. Tannenbaum

The paper reclassifies breast tumors into 7 classes using interpretable mRNA signatures, showing improved survival outcomes for myoepithelial and immune-related phenotypes.

bioRxiv · Jul 16, 2019Cancer Biology

Molecular phenotyping using networks, diffusion, and topology: soft tissue sarcoma

J. Mathews, M. Pouryahya, C. Moosmueller, I. Kevrekidis, J. Deasy, A. Tannenbaum

The paper introduces a network-based analysis method to identify gene expression signatures in sarcomas, revealing known and novel subtypes associated with p53 signaling.

bioRxiv · May 24, 2018Cancer Biology

Characterizing Cancer Drug Response and Biological Correlates: A Geometric Network Approach

M. Pouryahya, J. H. Oh, J. Mathews, J. Deasy, A. R. Tannenbaum

The paper uses a geometric network approach to analyze drug response in cancer cell lines, linking network robustness to drug sensitivity and identifying genomic biomarkers.

bioRxiv · Nov 22, 2017Cancer Biology