Cross-species analysis of enhancer logic using deep learning

Cited by (129)

Items 101–129 of 129

1. In silico genome transplants and the cis-regulatory basis of biodiversity
   Alexander L. Starr, Michael E. Palmer, Hunter B. Fraser · 2025 · Trends in Genetics
2. Additional file 11 of Landscape of enhancer disruption and functional screen in melanoma cells
   Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
3. Additional file 16 of Landscape of enhancer disruption and functional screen in melanoma cells
   Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
4. Additional file 2 of Landscape of enhancer disruption and functional screen in melanoma cells
   Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
5. Additional file 10 of Landscape of enhancer disruption and functional screen in melanoma cells
   Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
6. Additional file 17 of Landscape of enhancer disruption and functional screen in melanoma cells
   Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
7. Additional file 5 of Landscape of enhancer disruption and functional screen in melanoma cells
   Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
8. Additional file 7 of Landscape of enhancer disruption and functional screen in melanoma cells
   Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
9. Additional file 1 of Landscape of enhancer disruption and functional screen in melanoma cells
   Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
10. Additional file 6 of Landscape of enhancer disruption and functional screen in melanoma cells
    Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
11. Additional file 13 of Landscape of enhancer disruption and functional screen in melanoma cells
    Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
12. Additional file 4 of Landscape of enhancer disruption and functional screen in melanoma cells
    Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
13. Additional file 12 of Landscape of enhancer disruption and functional screen in melanoma cells
    Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
14. Additional file 9 of Landscape of enhancer disruption and functional screen in melanoma cells
    Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
15. Additional file 14 of Landscape of enhancer disruption and functional screen in melanoma cells
    Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
16. Additional file 15 of Landscape of enhancer disruption and functional screen in melanoma cells
    Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
17. Additional file 8 of Landscape of enhancer disruption and functional screen in melanoma cells
    Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
18. Additional file 1 of Inferring mammalian tissue-specific regulatory conservation by predicting tissue-specific differences in open chromatin
    Irene M. Kaplow, Daniel E. Schäffer, Morgan E. Wirthlin, Alyssa J. Lawler, Ashley R. Brown, Michael Kleyman, Andreas R. Pfenning · 2022 · Figshare
19. Additional file 3 of Landscape of enhancer disruption and functional screen in melanoma cells
    Wang, Zhao, Menghan Luo, Liang, Qian, Zhao, Ke, Hu, Yuelin, Wang, Wei, Feng, Xiangling, Bolang Hu, Jianjin Teng, Tianyi You et al. · 2024 · Figshare
20. Machine Learning Methods in Predicting Regulatory Elements in the Non-coding Genome
    Faisal Asadi, Felix Giovan Oktaviano Poa, Mellisa Angelin, Hany Wijaya, Deverel Vieri, Andrew Alfonso Lie · 2025 · International Conference on Cybernetics and Intelligent System (ICORIS)
21. Conception de séquences génomiques artificielles chez la levure par apprentissage profond
    Etienne Routhier · 2021 · theses.fr (ABES)
22. Étude des éléments cis-régulateurs à différentes échelles : approches fondamentales à appliquer
    Fayrouz Hammal · 2023 · theses.fr (ABES)
23. Biological Features Underlying Factor-Specific Predictability of Cross-Species Regulatory Occupancy
    Yiman Wang, Guifen Liu, Yue Wang, Yong Zhang · 2026 · bioRxiv (Cold Spring Harbor Laboratory)
24. Mapping functional non-coding variation in individual human genomes through haplotyping, multiomics, and deep learning
    Mikhail D. Magnitov, Robin H. van der Weide, Aster F. Witvliet, Miguel Hernández-Quiles, Moreno Martinovic, Hans Teunissen, Luca Braccioli, Michiel Vermeulen, Elzo de Wit · 2026 · Nature Communications
25. The development and application of deep learning for stem cell research
    Zhenfu Li, Wenjing Zhang, Yuxin Wu, Yaxuan Ye, Yuxin Chen, Jian Wu, Di Chen · 2026 · Journal of genetics and genomics/Journal of Genetics and Genomics
26. Gene regulatory innovations from transposable elements in primate cerebellum development
    Tetsuya Yamada, Mari Sepp, Ioannis Sarropoulos, Henrick Kaessmann · 2026 · Nature Communications
27. Leveraging human-trained neural networks for cross-species chromatin regulation annotations
    Noémien Maillard, Julie Demars, Raphaël Mourad · 2026 · G3 Genes Genomes Genetics
28. Unlocking cis -regulatory landscapes across 500 million years of evolution and disease mechanisms
    Tássia Mangetti Gonçalves, Casey L. Stewart, Samantha D Baxley, Jason Xu, Kevin Boyer, Bijesh George, Daofeng Li, Chengran Yang, Harrison W. Gabel, Xianhua Piao et al. · 2026 · NAR Genomics and Bioinformatics
29. Integration by parts: The multi-layered mechanisms of cis-regulatory control
    Jake Cornwall-Scoones, James Briscoe, M. Joaquina Delàs · 2026 · Molecular Cell