Author

Jack X. Chen

Massachusetts Institute of Technology

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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Evolutionary Biology· 1 Molecular Biology· 1

Signature Assays, Organisms & Methods

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Approach:deep learning· 2 Research Focus:drug response / drug discovery· 1 Research Focus:gene regulatory network inference· 1 Approach:large language model· 1 Assay:long-read sequencing· 1 Assay:scRNA-seq· 1 Research Focus:sequence-to-function modeling· 1 Approach:transformer / foundation model· 1

Frequent Co-Authors

Shuangjia ZhengiD· 2 shared Anyue Cheng· 1 shared Bibi ZhangiD· 1 shared Guangye Lv· 1 shared Jiahao Wang· 1 shared Junxi Wang· 1 shared Junxi WangiD· 1 shared Lu Zhao· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 37 mutual co-author links

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2 shared papersMolecular Biology

Shuangjia ZhengORCID

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2 papers

Recent·Most cited

A Long-Context Generative Foundation Model Deciphers RNA Design Principles

Yanjie Huang, Guangye Lv, Anyue Cheng, Wei Xie, Mengyan Chen, Xinyi Ma, Yijun Huang, Yueyang Tang, Qingya Shi, Jiahao Wang, Junxi Wang, Junxi Wang, Yunpeng Xia, Lu Zhao, Yifang Cai, , Shuangjia Zheng

EVA is a long-context generative RNA model trained on 114 million sequences, achieving state-of-the-art performance in RNA design tasks and structural modeling.

bioRxiv · Mar 24, 2026 · PreprintMolecular Biology

Capturing Natural Evolution in Function-guided RNA Design via Genomic Foundation Models

Yanjie Huang, Bibi Zhang, Jack X. Chen, Runze Ma, Zhongyue Zhang, Xianjun Chen, Yi Yang, Shuangjia Zheng

The paper introduces a zero-shot RNA design method using genomic foundation models, achieving improved fluorescence and binding affinity in RNA aptamers.

bioRxiv · Apr 8, 2025 · PreprintEvolutionary Biology