Author

Tianji Yu

Columbia University

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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Developmental Biology· 2 Bioinformatics· 1 Molecular Biology· 1

Signature Assays, Organisms & Methods

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Research Focus:gene regulatory network inference· 4 Research Focus:differential expression· 3 Research Focus:cell type annotation· 2 Research Focus:cell-cell communication· 2 Assay:DNA methylation· 2 Approach:experimental assay· 2 Organism:human· 2 Organism:mouse· 2

Frequent Co-Authors

Adolfo A. FerrandoiD· 1 shared Alberto CicciaiD· 1 shared Alberto PezzottaiD· 1 shared Alejandro BuendiaiD· 1 shared Andreas SagneriD· 1 shared Angelina Li· 1 shared Anouchka P. LaurentiD· 1 shared Anqi Shao· 1 shared

Activity by Year

2023-2025 · peak 3/yr

Co-Author Collaboration Network

10 top collaborators · 14 mutual co-author links

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1 shared paperBioinformatics

Adolfo A. FerrandoORCID

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Author profile →

4 papers

Recent·Most cited

Primate-specific adaptation of Ku protects transcriptomic integrity by suppressing Alu-mediated alternative splicing

Tianji Yu, Jimin Yoon, Yimeng Zhu, Angelina Li, Brian J. Lee, Daniel F. Moakley, Jing Duan, Qiannian Deng, Fei Hou, Mengfang Yan, Vincenzo Alessandro Gennarino, Ke Zhang, Li Chen, Shan Zha, Chaolin Zhang

This study shows that primate-specific Ku adaptation suppresses Alu-mediated alternative splicing, maintaining transcriptomic integrity and linking Ku function to brain development and disease.

bioRxiv · Dec 18, 2025 · PreprintMolecular Biology

Predictable Engineering of Signal-DependentCis-Regulatory Elements

Jake Cornwall-Scoones, Dirk Benzinger, Tianji Yu, Alberto Pezzotta, Andreas Sagner, Lina Gerontogianni, Shaun Bernadet, Elizabeth Finnie, Giulia L. M. Boezio, Hannah T. Stuart, Manuela Melchionda, Oliver C K Inge, Bianca Dumitrascu, James Briscoe, M. Joaquina Delàs

The paper develops a method to engineer synthetic cis-regulatory elements that control gene expression in response to signals, showing they can be designed using quantitative rules.

bioRxiv · Mar 7, 2025 · PreprintDevelopmental Biology

GET: a foundation model of transcription across human cell types

Xi Fu, Shentong Mo, Alejandro Buendia, Anouchka P. Laurent, Anqi Shao, María del Mar Álvarez‐Torres, Tianji Yu, Jimin Tan, Jiayu Su, Romella Sagatelian, Adolfo A. Ferrando, Alberto Ciccia, Yanyan Lan, David M. Owens, Teresa Palomero, , Raúl Rabadán

GET is a foundation model that accurately predicts gene expression and regulatory interactions across 213 human cell types using chromatin accessibility and sequence data.

Nature · Jan 8, 2025Peer-reviewedBioinformatics

Endothelial Cell SMAD6 Balances ACVRL1/Alk1 Function to Regulate Adherens Junctions and Hepatic Vascular Development

Molly R. Kulikauskas, Morgan Oatley, Tianji Yu, Ziqing Liu, Lauren Matsumura, Elise Kidder, Dana L. Ruter, Victoria L. Bautch

This study shows SMAD6 in endothelial cells balances ALK1 signaling to regulate vascular development and junction integrity, preventing hemorrhage and vascular defects in the embryonic liver.

Development · Oct 3, 2023Peer-reviewedDevelopmental Biology