Author

James W. Jakub

Mayo Clinic in FloridaORCID 0000-0002-8005-1072Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Organism:human· 3 Research Focus:cell type annotation· 2 Research Focus:differential expression· 2 Research Focus:gene regulatory network inference· 2 Approach:statistical model· 2 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1 Approach:experimental assay· 1

Frequent Co-Authors

Sarah A. McLaughliniD· 2 shared Akhilesh PandeyiD· 1 shared Amy C. DegnimiD· 1 shared Anguraj SadanandamiD· 1 shared Ashlyn Jore· 1 shared Chathu L. Atherton· 1 shared Chitra Priya EmperumaliD· 1 shared Cui TaoiD· 1 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 24 mutual co-author links

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2 shared papersCancer Biology

Sarah A. McLaughlinORCID

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3 papers

Recent·Most cited

Information contracts determine what inverse perturbation benchmarks measure

Jianfu Li, L. Frank Huang, Wenyu Song, Ying Li, James W. Jakub, Hong Qin, Yan Luo, Cui Tao

The paper introduces InverseBench and FSTN to evaluate inverse perturbation benchmarks, showing varying accuracy across tasks and highlighting the importance of endpoint construction.

bioRxiv · Oct 23, 2026 · PreprintBioinformatics

The Human Male Mammary Gland has Similar Epithelial Populations to Female but Distinct Composition and Transcriptional Properties

Myriam Iliana Ibanez-Rios, Syed Mohammed Musheer Aalam, Megan L. Ritting, Ashlyn Jore, Keyur Chaludia, Chitra Priya Emperumal, James W. Jakub, Sarah A. McLaughlin, Amy C. Degnim, Judy Caroline Boughey, Fergus J. Couch, Siddhartha Yadav, Anguraj Sadanandam, Mark E. Sherman, Derek C. Radisky, , Nagarajan Kannan

This paper presents a single-cell RNA sequencing atlas of the adult human male breast, revealing distinct transcriptional properties and composition compared to female breast tissue.

bioRxiv · Mar 31, 2026 · PreprintCancer Biology

Proteomic analysis of exosomes from lymphatic affluents reveals their implications in developing premetastatic niche in melanoma.

Shankar Suman, Liyi Geng, Wendy Kay Nevala, Raymond M. Moore, Chathu L. Atherton, Xiaowei Zhao, Jaeyun Sung, Ray Guo, James W. Jakub, Richard K. Kandasamy, Sarah A. McLaughlin, Akhilesh Pandey, Svetomir N. Markovic

This study identifies unique proteomic signatures in melanoma-derived lymphatic exosomes that contribute to premetastatic niche formation in sentinel lymph nodes.

Molecular & Cellular Proteomics · Nov 20, 2025Peer-reviewedCancer Biology