Author

Minnie Deng

The University of Texas Southwestern Medical Center

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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Genomics· 2 Neuroscience· 1

Signature Assays, Organisms & Methods

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Organism:human· 3 Approach:experimental assay· 2 Assay:scRNA-seq· 2 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1 Approach:deep learning· 1 Research Focus:differential expression· 1 Research Focus:drug response / drug discovery· 1

Frequent Co-Authors

Chikara TakeuchiiD· 3 shared Gary C. HoniD· 3 shared Huan ZhaoiD· 3 shared Maria H. ChahrouriD· 3 shared Mpathi Nzima· 3 shared Sushama SivakumariD· 3 shared W. Lee KrausiD· 3 shared Anjana SundarrajaniD· 2 shared

Activity by Year

2025-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

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3 shared papersGenomics

Chikara TakeuchiORCID

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Author profile →

3 papers

Recent·Most cited

Systematic CRISPRi perturbation of 1,408 autism risk genes maps multilevel transcriptional convergence in human cortical neurons

Ashlesha Gogate, Wei-Chen Chen, Mpathi Nzima, Chikara Takeuchi, Huan Zhao, Lei Wang, Sushama Sivakumar, Minnie Deng, Kiran J. Kaur, W. Lee Kraus, Nikhil V Munshi, Gary C. Hon, Maria H. Chahrour

This study uses CRISPRi Perturb-seq to analyze 1,408 autism risk genes in human cortical neurons, identifying 215 genes that cause global transcriptomic dysregulation and uncovering shared transcriptional pathways.

bioRxiv · Sep 4, 2026 · PreprintNeuroscience

Regulatory network hubs guide dynamic human lineage specification

Chikara Takeuchi, Sushama Sivakumar, Anjana Sundarrajan, Yihan Wang, Sean C. Goetsch, Huan Zhao, Lei Wang, Mpathi Nzima, Minnie Deng, Kartik N Kulkarni, Lin Xu, Jun Wu, Bruce A. Posner, Maria H. Chahrour, W. Lee Kraus, , Gary C. Hon

The paper identifies dynamic regulatory network hubs in human lineage specification using Perturb-Seq and constructs a deep learning model to predict perturbed TFs in patient transcriptomes.

bioRxiv · Jun 15, 2026 · PreprintGenomics

Benchmarking and optimizing Perturb-seq in differentiating human pluripotent stem cells

Sushama Sivakumar, Yihan Wang, Sean C. Goetsch, Vrushali Pandit, Lei Wang, Huan Zhao, Anjana Sundarrajan, Daniel A. Armendariz, Chikara Takeuchi, Minnie Deng, Mpathi Nzima, Wei-Chen Chen, ASHLEY E. DEDERICH, Lauretta El Hayek, Taosha Gao, , Nikhil V. Munshi

This study benchmarks and optimizes Perturb-seq in human pluripotent stem cells, identifying shared regulatory networks during cardiomyocyte differentiation.

Stem Cell Reports · Nov 13, 2025Peer-reviewedGenomics