For a full list of publications, please see google scholar page.

Selected Publications

1. Yang H*, Zhang H*, Luan Y*, Liu T, Yang W, Roberts KG, Qian M-x, Zhang B, Yang W, Perez-Andreu V, Xu J, Iyyanki S, Kuang D, Stasiak LA, Reshmi SC, Gastier-Foster J, Smith C, Pui C-H, Evans WE, Hunger SP, Platanias LC, Relling MV, Mullighan CG, Loh ML, Yue F, Yang JJ. Noncoding genetic variation in GATA3 increases acute lymphoblastic leukemia risk through local and global changes in chromatin conformation. Nature Genetics.(2022)

2. Yang H*, Luan Y*, Liu T*, Lee HJ, Fang L, Wang Y, Wang X, Zhang B, Jin Q, Ang KC, Xing X, Wang J, Xu J, Song F, Sriranga I, Khunsriraksakul C, Salameh T, Li D, Choudhary MNK, Topczewski J, Wang K, Gerhard GS, Hardison RC, Wang T, Cheng KC, Yue F. A map of cis-regulatory elements and 3D genome structures in zebrafish. Nature. (2020).

3. Duan Z, Xu S, Sai Srinivasan S, Hwang A, Lee CY, Yue F, Gerstein M, Luan Y, Girgenti M, Zhang J. scENCORE: leveraging single-cell epigenetic data to predict chromatin conformation using graph embedding. Briefings in Bioinformatics. (2024)

4. Liu T, Wang J, Yang H, Jin Q, Wang X, Fu Y, Luan Y, Wang Q, Youngblood MW, Lu X, Casadei L, Pollock R, Yue F. Enhancer Coamplification and Hijacking Promote Oncogene Expression in Liposarcoma. Cancer Res. (2023)

5. Xu J, Song F, Lyu H, Kobayashi M, Zhang B, Zhao Z, Hou Y, Wang X, Luan Y, Jia B, Stasiak L, Wong JH-y, Wang Q, Jin Q, Jin Q, Fu Y, Yang H, Hardison RC, Dovat S, Platanias LC, Diao Y, Yang Y, Yamada T, Viny AD, Levine RL, Claxton D, Broach JR, Zheng H, Yue F. Subtype-specific 3D genome alteration in acute myeloid leukaemia. Nature. (2022)

6. Wang, X., Luan, Y. and Yue, F. EagleC: A deep-learning framework for detecting a full range of structural variations from bulk and single-cell contact maps. Science advances (2022)

7. Sun F, Ou J, Shoffner AR, Luan Y, Yang H, Song L, Safi A, Cao J, Yue F, Crawford GE, Poss KD. Enhancer selection dictates gene expression responses in remote organs during tissue regeneration. Nature Cell Biology. (2022)

8. Zhao Y, Hou Y, Xu Y, Luan Y, Zhou H, Qi X, Hu M, Wang D, Wang Z, Fu Y, Li J, Zhang S, Chen J, Han J, Li X, Zhao S. A compendium and comparative epigenomics analysis of cis-regulatory elements in the pig genome. Nature Communications. (2021);

9. Iyyanki T, Zhang B, Wang Q, Hou Y, Jin Q, Xu J, Yang H, Liu T, Wang X, Song F, Luan Y, Yamashita H, Chien R, Lyu H, Zhang L, Wang L, Warrick J, Raman JD, Meeks JJ, DeGraff DJ, Yue F. Subtype-associated epigenomic landscape and 3D genome structure in bladder cancer. Genome Biology.(2021)

10.Luan Y, Zhang L, Hu M, Xu Y, Hou Y, Li X, Zhao S, Zhao Y, Li C. Identification and Conservation Analysis of Cis-Regulatory Elements in Pig Liver. Genes. (2019)