Author

Mary F. Majewski

Van Andel InstituteORCID 0000-0002-7293-3171Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 1 Genetics· 1 Genomics· 1 Molecular Biology· 1

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 2 Organism:human· 2 Assay:scRNA-seq· 2 Approach:statistical model· 2 Assay:bulk RNA-seq· 1 Research Focus:clustering· 1 Approach:deep learning· 1 Research Focus:differential expression· 1

Frequent Co-Authors

Benjamin K. JohnsoniD· 3 shared H. Josh JangiD· 3 shared Hui SheniD· 3 shared Ayush SemwaliD· 2 shared Jacob MorrisoniD· 2 shared Marie AdamsiD· 2 shared Theron PalmeriD· 2 shared Ting WangiD· 2 shared

Activity by Year

2022-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 38 mutual co-author links

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3 shared papersGenomics

Benjamin K. JohnsonORCID

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Author profile →

4 papers

Recent·Most cited

Leveraging Human Pangenome for Improved Somatic Variant Detection

Qichen Fu, Zilan Xin, Benpeng Miao, Wenjin Zhang, Nahyun Kong, Zitian Tang, Andrew Ruttenberg, Derek Albracht, Edward A. Belter, John E. Garza, Chad Tomlinson, Elvisa Mehinovic, Jiawei Shen, Xiaoyu Zhuo, Shihua Dong, , Ting Wang

This study shows that using graph-based pangenomes and inferred donor-specific assemblies improves somatic variant detection compared to GRCh38.

bioRxiv · Jan 5, 2026 · PreprintGenomics

Maternal SETDB1 enables development beyond cleavage stages by extinguishing the MERVL-driven 2-cell totipotency transcriptional program in the mouse embryo

Tie-Bo Zeng, Zhen Fang Fu, Mary F. Majewski, Ji Liao, Marie Adams, Piroska E. Szabó

The paper shows that maternal SETDB1 is essential for silencing 2-cell totipotency genes in mouse embryos, allowing development beyond the 8-cell stage.

bioRxiv · Oct 7, 2025 · PreprintGenetics

Tranquillyzer: A Flexible Neural Network Framework for Structural Annotation and Demultiplexing of Long-Read Transcriptomes

Ayush Semwal, Jacob Morrison, Ian Beddows, Theron Palmer, Mary F. Majewski, H. Josh Jang, Benjamin K. Johnson, Hui Shen

Tranquillyzer is a deep learning framework for processing long-read single-cell RNA-seq data, enabling accurate identification of structural elements and demultiplexing despite sequencing errors and library variability.

bioRxiv · Jul 25, 2025 · PreprintBioinformatics

Efficient profiling of total RNA in single cells with STORM-seq

Benjamin K. Johnson, Mary F. Majewski, H. Josh Jang, Rebecca A. Siwicki, Marc Wegener, Ayush Semwal, Jacob Morrison, Kristin Gallik, Michael Hagemann-Jensen, Kelly K. Foy, Larissa L. Rossell, Emily J. Siegwald, Dave W. Chesla, Jose M. Teixeira, Marie Adams, , Hui Shen

STORM-seq improves single-cell RNA sequencing by enhancing detection of non-coding transcripts and transcript-level complexity, revealing new cell states in human fallopian tube epithelium.

bioRxiv · Mar 14, 2022 · PreprintMolecular Biology