1 code implementation • 13 Feb 2024 • Xiangru Tang, Howard Dai, Elizabeth Knight, Fang Wu, Yunyang Li, Tianxiao Li, Mark Gerstein
Within each theme, we identify a variety of subtasks and applications, highlighting important datasets, benchmarks, and model architectures and comparing the performance of top models.
1 code implementation • 4 Oct 2023 • Siyuan Li, Weiyang Jin, Zedong Wang, Fang Wu, Zicheng Liu, Cheng Tan, Stan Z. Li
The main challenge is how to distinguish high-quality pseudo labels against the confirmation bias.
1 code implementation • 8 Apr 2023 • Fang Wu, Huiling Qin, Siyuan Li, Stan Z. Li, Xianyuan Zhan, Jinbo Xu
In the field of artificial intelligence for science, it is consistently an essential challenge to face a limited amount of labeled data for real-world problems.
1 code implementation • 7 Jan 2023 • Fang Wu, Siyuan Li, Xurui Jin, Yinghui Jiang, Dragomir Radev, Zhangming Niu, Stan Z. Li
It takes advantage of MatchExplainer to fix the most informative portion of the graph and merely operates graph augmentations on the rest less informative part.
1 code implementation • 7 Dec 2022 • Fang Wu, Lirong Wu, Dragomir Radev, Jinbo Xu, Stan Z. Li
Geometric deep learning has recently achieved great success in non-Euclidean domains, and learning on 3D structures of large biomolecules is emerging as a distinct research area.
3 code implementations • 27 May 2022 • Siyuan Li, Di wu, Fang Wu, Zelin Zang, Stan. Z. Li
We then propose an Architecture-Agnostic Masked Image Modeling framework (A$^2$MIM), which is compatible with both Transformers and CNNs in a unified way.
1 code implementation • 15 May 2022 • Fang Wu, Siyuan Li, Lirong Wu, Dragomir Radev, Stan Z. Li
Graph neural networks (GNNs) mainly rely on the message-passing paradigm to propagate node features and build interactions, and different graph learning tasks require different ranges of node interactions.
no code implementations • 19 Apr 2022 • Fang Wu, Stan Z. Li
To waive this requirement, we propose a novel model called DiffMD by directly estimating the gradient of the log density of molecular conformations.
1 code implementation • 13 Feb 2022 • Fang Wu, Nicolas Courty, Shuting Jin, Stan Z. Li
Training data are usually limited or heterogeneous in many chemical and biological applications.
2 code implementations • 4 Oct 2021 • Fang Wu, Dragomir Radev, Stan Z. Li
Then HMGs are constructed with both atom-level and motif-level nodes.
2 code implementations • 28 Mar 2021 • Fang Wu, Stan Z. Li
Sentence insertion is an interesting NLP problem but received insufficient attention.