Author

D. A. Dean

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 Biochemistry· 2 Microbiology· 2 Scientific Communication & Education· 1

Signature Assays, Organisms & Methods

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Approach:experimental assay· 6 Organism:mouse· 5 Assay:metabolomics· 4 Research Focus:benchmarking· 2 Assay:bulk RNA-seq· 2 Research Focus:cell type annotation· 2 Research Focus:database / resource· 2 Research Focus:differential expression· 2

Frequent Co-Authors

L.-I. McCall· 4 shared A. Srivastava· 3 shared B. Davis-Dusenbery· 3 shared C. Frech· 3 shared E. Hossain· 3 shared A. L. Welm· 2 shared A. R. Parab· 2 shared C. J. Bult· 2 shared

Activity by Year

2018-2023 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 24 mutual co-author links

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4 shared papersMicrobiology

L.-I. McCall

Mutual co-authors in cluster

Author profile →

8 papers

Recent·Most cited

Persistent biofluid small molecule alterations induced by Trypanosoma cruzi infection are not restored by antiparasitic treatment

D. A. Dean, J. Roach, R. Ulrich vonBargen, Y. Xiong, S. S. Kane, L. Klechka, K. Wheeler, M. Jimenez Sandoval, M. Lesani, E. Hossain, M. Katemauswa, M. Schaefer, M. Harris, S. Barron, Z. Liu, , L.-I. McCall

This study identifies persistent urine metabolome alterations in T. cruzi-infected mice that are not reversed by antiparasitic treatment, suggesting urine as a potential diagnostic tool for Chagas Disease.

bioRxiv · Jun 3, 2023Microbiology

Spatial metabolomics reveals localized impact of influenza virus infection on the lung tissue metabolome

D. A. Dean, L. Klechka, E. Hossain, A. R. Parab, K. Eaton, M. Hinsdale, L.-I. McCall

This study uses spatial metabolomics to analyze metabolic changes in lung tissue and plasma of influenza-infected mice, identifying site-specific metabolite alterations and their potential as therapeutic targets.

bioRxiv · Nov 22, 2021Microbiology

PDXNet Portal: Patient-Derived Xenograft model, data, workflow, and tool discovery

S. Koc, M. W. Lloyd, J. Grover, S. Seepo, S. Lakshmi Subramanian, M. Ray, C. Frech, J. DiGiovanna, P. Webster, S. Neuhauser, A. Srivastava, X. Yi Woo, B. J. Sanderson, B. White, P. Lott, , J. H. Chuang

The paper introduces the PDXNet Portal, a centralized resource for PDX models and data, offering analysis workflows and facilitating cancer research collaboration.

bioRxiv · Oct 15, 2021Cancer Biology

Optimized extraction method enables quantitative analysis of surface metabolite recovery for exposomics and behavioral studies

M. Katemauswa, E. Hossain, Z. Liu, M. Lesani, A. R. Parab, D. A. Dean, L.-I. McCall

This study develops a swab-based method to quantitatively measure small molecule recovery on surfaces, demonstrating its use for exposomics and behavioral analysis.

bioRxiv · Aug 25, 2021Biochemistry

Spatial metabolomics identifies localized chemical changes in heart tissue during chronic cardiac Chagas disease

D. A. Dean, Gautham, J. L. Siqueira-Neto, J. H. McKerrow, P. C. Dorrestein, L.-I. McCall

The paper uses spatial metabolomics to identify localized metabolic changes in heart tissue of mice chronically infected with Trypanosoma cruzi, revealing distinct metabolic perturbations from parasite burden sites.

bioRxiv · Jun 29, 2020Biochemistry

Conservation of copy number profiles during engraftment and passaging of patient-derived cancer xenografts

X. Y. Woo, J. Giordano, A. Srivastava, Z.-M. Zhao, M. W. Lloyd, R. de Bruijn, Y.-S. Suh, R. Patidar, L. Chen, S. Scherer, M. Bailey, C.-H. Yang, E. Cortes-Sanchez, Y. Xi, J. Wang, , B. E Welm

This study shows that copy number profiles are conserved in patient-derived xenografts (PDXs) through engraftment and passaging, indicating minimal impact from the mouse host on tumor evolution.

bioRxiv · Dec 3, 2019Cancer Biology

Systematic Establishment of Robustness and Standards in Patient-Derived Xenograft Experiments and Analysis

Y. A. Evrard, A. SRIVASTAVA, J. Randjelovic, S. Arunachalam, C. J. Bult, H. Chen, L. Chen, M. Davies, S. Davies, B. Davis-Dusenbery, J. DiGiovanna, L. Ding, J. H. Doroshow, B. Fang, C. Frech, , J. Morris

The paper tests the reproducibility of PDX drug responses and sequence results across different labs using standardized protocols and workflows.

bioRxiv · Oct 2, 2019Cancer Biology

Enabling Precision Medicine via standard communication of NGS provenance, analysis, and results

G. Alterovitz, D. A. Dean, C. Goble, M. R. Crusoe, S. Soiland-Reyes, A. Bell, A. Hayes, A. Suresh, A. Purkayastha, C. H. H. King, D. Taylor, E. Johanson, E. E. Thompson, E. Donaldson, H. Morizono, , R. Mazumder

The paper introduces the BioCompute framework to standardize genomic data reporting, enabling reproducibility and interoperability in precision medicine.

bioRxiv · Nov 5, 2018Scientific Communication & Education