Author

Huihui Qi

Johns Hopkins UniversityORCID 0000-0002-0435-0804Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:experimental assay· 4 Organism:mouse· 3 Research Focus:cell type annotation· 2 Assay:bulk RNA-seq· 1 Research Focus:clustering· 1 Research Focus:gene regulatory network inference· 1 Organism:multiple species· 1 Assay:scRNA-seq· 1

Frequent Co-Authors

Justus M. KebschulliD· 3 shared Abhishek AgarwaliD· 1 shared Alana A. OyamaiD· 1 shared Angela Y. FaniD· 1 shared Ben OuelletteiD· 1 shared Caijing LuiD· 1 shared Caleb ShiiD· 1 shared Christopher D Workman· 1 shared

Activity by Year

2022-2026 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 11 mutual co-author links

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3 shared papersNeuroscience

Justus M. KebschullORCID

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Author profile →

5 papers

Recent·Most cited

Conserved and specialized features of thalamocortical wiring revealed by single-cell projection mapping in mouse and marmoset

Angela Y. Fan, Jack T. Scott, Noah M. Kuehn, Maryam Majeed, Sabrina Y Cheng, Huihui Qi, Mathew T. Summers, John Hover, Tye Johnson, Ben Ouellette, Alana A. Oyama, Diana I. Ravens, Huiqing Zhan, Justus M. Kebschull, James A. Bourne, Xiaoyin Chen

The paper uses single-cell projection mapping in mice and marmosets to show that thalamocortical projections are spatially segregated in marmosets but follow a conserved gradient in both species.

bioRxiv · Jul 8, 2026 · PreprintNeuroscience

BARseq3: a modular system for integrating spatial multi-omics and cellular barcoding in single cells

Huihui Qi, Manjari M-G Anant, Dylan Z. Faltine-Gonzalez, Ruitao Hu, Lai Wei, Christopher D Workman, Caleb Shi, Ishbel Del Rosario, Justus M. Kebschull

BARseq3 integrates spatial multi-omics and cellular barcoding in single cells to enable multimodal understanding of cellular identity.

bioRxiv · May 16, 2026 · PreprintGenomics

β-catenin-independent regulation by TCF7L2 underlies isoform redundancy during embryonic thalamic development

Michael O Gabriel, Joanna Bem, Marcin Andrzej Lipiec, Abhishek Agarwal, Ewa Liszewska, Suelen Baggio, Huihui Qi, Dariusz Plewczyński, Marta Barbara Wisniewska

The paper investigates TCF7L2 isoform redundancy in thalamic development, finding β-catenin-independent regulation and a developmental switch in activity.

bioRxiv · Dec 29, 2025 · PreprintNeuroscience

MAPseq2: a sensitive and cost-effective barcoded connectomics method

Hyopil Kim, Huihui Qi, Craig Washington, Xiao Yang Liang, Justus M. Kebschull

MAPseq2 improves sensitivity and reduces cost for barcoded connectomics by enhancing the original MAPseq protocol.

bioRxiv · Jun 23, 2025 · PreprintNeuroscience

TCF7L2 acts as a molecular switch in midbrain to control mammal vocalization through a transcriptional repression mechanism

Huihui Qi, Li Luo, Caijing Lu, Runze Chen, Xianyao Zhou, Xiaohui Zhang, Yichang Jia

This study identifies TCF7L2 as a molecular switch in the midbrain that controls vocalization through transcriptional repression, showing its role in neuronal gene expression and synaptic transmission.

bioRxiv · Jan 10, 2022 · PreprintNeuroscience