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2. Chen H, Chen J, Muir LA, Ronquist S, Meixner W, Ljungman M, Ried T, Smale S, Rajapakse I. "Functional Organization of the Human 4D Nucleome. " Proceedings of the National Academy of Sciences 112.26 (2015): 8002-8007. Supporting Information 

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4. Yang, Fan, et al. "scBERT as a large-scale pretrained deep language model for cell type annotation of single-cell RNA-seq data." Nature Machine Intelligence 4.10 (2022): 852-866. 

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6. Chen, Ricky TQ, et al. "Neural ordinary differential equations." Advances in neural information processing systems 31 (2018). 

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9. Khan, Sumeer Ahmad, et al. "Reusability report: Learning the transcriptional grammar in single-cell RNA-sequencing data using transformers." Nature Machine Intelligence 5.12 (2023): 1437-1446. 

10. Geshkovski, Borjan, et al. "A mathematical perspective on Transformers." arXiv preprint arXiv:2312.10794 (2023). 

11. Vaswani, Ashish, et al. "Attention is all you need." Advances in neural information processing systems 30 (2017).

12. Schubert, Ingmar, et al. "A Generalist Dynamics Model for Control." arXiv preprint arXiv:2305.10912 (2023).

13. Dotson, Gabrielle A., Can Chen, Stephen Lindsly, Anthony Cicalo, Sam Dilworth, Charles Ryan, Sivakumar Jeyarajan et al. "Deciphering Multi-way Interactions in the Human Genome." Nature Communications 13, no. 1 (2022): 5498. 

14. He, Zhen, et al. "Mosaic integration and knowledge transfer of single-cell multimodal data with MIDAS." Nature Biotechnology (2024): 1-12.

15. Li, Q., Hu, Z., Wang, Y., Li, L., Fan, Y., King, I., ... & Li, Y. (2024). "Progress and Opportunities of Foundation Models in Bioinformatics." arXiv preprint arXiv:2402.04286.

16. K. Kawaharazuka, T. Matsushima, A. Gambardella, J. Guo, C. Paxton, and A. Zeng, “Real-World Robot Applications of Foundation Models: A Review.” arXiv, Feb. 08, 2024

17. Gemini Team et al., “Gemini: A Family of Highly Capable Multimodal Models.” arXiv, Dec. 18, 2023

18. C. V. Theodoris et al., “Transfer learning enables predictions in network biology,” Nature, vol. 618, no. 7965, pp. 616–624, Jun. 2023

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20. H. Cui et al., “scGPT: toward building a foundation model for single-cell multi-omics using generative AI,” Nat Methods, pp. 1–11, Feb. 2024

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OTHER RESOURCES

Graph Attention Networks: https://petar-v.com/GAT/

NVIDIA  and other related sites etc....