Author

Md Musaddaqul Hasib

University of PittsburghORCID 0000-0001-9341-2802Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Bioinformatics· 2 Cell Biology· 2

Signature Assays, Organisms & Methods

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Research Focus:cell type annotation· 3 Approach:deep learning· 3 Research Focus:differential expression· 3 Assay:spatial transcriptomics· 3 Approach:statistical model· 3 Research Focus:cell-cell communication· 2 Organism:human· 2 Assay:scRNA-seq· 2

Frequent Co-Authors

Yufei HuangiD· 4 shared Shou‐Jiang GaoiD· 3 shared Wen MengiD· 2 shared Adam Officer· 1 shared Angela Chen· 1 shared Arun DasiD· 1 shared Bizunesh AbereiD· 1 shared David L. Schipper· 1 shared

Activity by Year

2024-2026 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 24 mutual co-author links

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4 shared papersCell Biology

Yufei HuangORCID

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Author profile →

4 papers

Recent·Most cited

Cell Cycle Regulation of Merkel Cell Polyomavirus Replication and Genome Inheritance in Single Cells

Steven W. Smeal, Hongzhao Zhou, Md Musaddaqul Hasib, Bizunesh Abere, Gabriel J. Kowalczyk, David L. Schipper, Yufei Huang, Patrick S. Moore, Yuan Chang, Robin Lee

This study investigates how MCV replication is coordinated with the host cell cycle and reveals mitotic inheritance of viral genomes in single cells.

bioRxiv · Aug 3, 2026 · PreprintCell Biology

Spatially Resolved Microglial State Transitions Govern Strain-Specific Zika Neuropathogenesis

Md Musaddaqul Hasib, Wen Meng, Gonzalo E. Mena, Hugh Halloway, Suzane Ramos da Silva, Gary Kohanbash, Yufei Huang, Shou‐Jiang Gao

This study uses spatial transcriptomics to compare how Asian and African Zika strains affect microglial states and brain tissue organization in mice, revealing strain-specific mechanisms of neuropathogenesis.

bioRxiv · May 5, 2026 · PreprintCell Biology

spatiAlytica: Viewer-Grounded Multimodal Agentic System for Interactive Spatial Omics Analysis

Arun Das, Kexun Zhang, Jifeng Song, Meiru Han, Angela Chen, Wen Meng, Hugh Galloway, Po-Yuan Chen, Sumin Jo, Zhentao Liu, Md Musaddaqul Hasib, Adam Officer, Harsh Sinha, Yu‐Chiao Chiu, Shou‐Jiang Gao, , Yufei Huang

spatiAlytica enables non-programmer biologists to perform interactive spatial omics analysis using natural language and a viewer-centric agentic system.

bioRxiv · May 4, 2026 · PreprintBioinformatics

Augment Single-cell RNA-seq data with Surface Protein Levels using Gene set-based Deep Learning and Transfer Learning Methods

Md Musaddaqul Hasib, Tinghe Zhang, Jianqiu Zhang, Shou‐Jiang Gao, Yufei Huang

This study introduces GS-NN, a gene-set-based deep learning method to augment surface protein levels from scRNA-seq data, showing improved cross-subject performance and interpretability.

bioRxiv · Apr 29, 2024 · PreprintBioinformatics