Search Results for author: Wei-Ying Ma

Found 19 papers, 8 papers with code

Unified Generative Modeling of 3D Molecules via Bayesian Flow Networks

1 code implementation17 Mar 2024 Yuxuan Song, Jingjing Gong, Yanru Qu, Hao Zhou, Mingyue Zheng, Jingjing Liu, Wei-Ying Ma

Advanced generative model (e. g., diffusion model) derived from simplified continuity assumptions of data distribution, though showing promising progress, has been difficult to apply directly to geometry generation applications due to the multi-modality and noise-sensitive nature of molecule geometry.

3D Molecule Generation

Rethinking Specificity in SBDD: Leveraging Delta Score and Energy-Guided Diffusion

no code implementations4 Mar 2024 Bowen Gao, Minsi Ren, Yuyan Ni, Yanwen Huang, Bo Qiang, Zhi-Ming Ma, Wei-Ying Ma, Yanyan Lan

In the field of Structure-based Drug Design (SBDD), deep learning-based generative models have achieved outstanding performance in terms of docking score.

Contrastive Learning Specificity

Contextual Molecule Representation Learning from Chemical Reaction Knowledge

no code implementations21 Feb 2024 Han Tang, Shikun Feng, Bicheng Lin, Yuyan Ni, Jingjing Liu, Wei-Ying Ma, Yanyan Lan

REMO offers a novel solution to MRL by exploiting the underlying shared patterns in chemical reactions as \textit{context} for pre-training, which effectively infers meaningful representations of common chemistry knowledge.

molecular representation Representation Learning +1

Equivariant Flow Matching with Hybrid Probability Transport

no code implementations12 Dec 2023 Yuxuan Song, Jingjing Gong, Minkai Xu, Ziyao Cao, Yanyan Lan, Stefano Ermon, Hao Zhou, Wei-Ying Ma

The generation of 3D molecules requires simultaneously deciding the categorical features~(atom types) and continuous features~(atom coordinates).

Sliced Denoising: A Physics-Informed Molecular Pre-Training Method

no code implementations3 Nov 2023 Yuyan Ni, Shikun Feng, Wei-Ying Ma, Zhi-Ming Ma, Yanyan Lan

By aligning with physical principles, SliDe shows a 42\% improvement in the accuracy of estimated force fields compared to current state-of-the-art denoising methods, and thus outperforms traditional baselines on various molecular property prediction tasks.

Denoising Drug Discovery +2

Fractional Denoising for 3D Molecular Pre-training

1 code implementation20 Jul 2023 Shikun Feng, Yuyan Ni, Yanyan Lan, Zhi-Ming Ma, Wei-Ying Ma

Theoretically, the objective is equivalent to learning the force field, which is revealed helpful for downstream tasks.

Denoising Drug Discovery +1

PEMP: Leveraging Physics Properties to Enhance Molecular Property Prediction

no code implementations18 Oct 2022 Yuancheng Sun, Yimeng Chen, Weizhi Ma, Wenhao Huang, Kang Liu, ZhiMing Ma, Wei-Ying Ma, Yanyan Lan

In our implementation, we adopt both the state-of-the-art molecule embedding models under the supervised learning paradigm and the pretraining paradigm as the molecule representation module of PEMP, respectively.

Drug Discovery Molecular Property Prediction +2

Neural Energy Minimization for Molecular Conformation Optimization

no code implementations ICLR 2022 Jiaqi Guan, Wesley Wei Qian, Qiang Liu, Wei-Ying Ma, Jianzhu Ma, Jian Peng

Assuming different forms of the underlying potential energy function, we can not only reinterpret and unify many of the existing models but also derive new variants of SE(3)-equivariant neural networks in a principled manner.

Controllable Person Image Synthesis with Attribute-Decomposed GAN

2 code implementations CVPR 2020 Yifang Men, Yiming Mao, Yuning Jiang, Wei-Ying Ma, Zhouhui Lian

This paper introduces the Attribute-Decomposed GAN, a novel generative model for controllable person image synthesis, which can produce realistic person images with desired human attributes (e. g., pose, head, upper clothes and pants) provided in various source inputs.

Attribute Continuous Control +1

Effective Domain Knowledge Transfer with Soft Fine-tuning

no code implementations5 Sep 2019 Zhichen Zhao, Bo-Wen Zhang, Yuning Jiang, Li Xu, Lei LI, Wei-Ying Ma

However, the datasets from source domain are simply discarded in the fine-tuning process.

Transfer Learning

Automatic Dataset Augmentation

no code implementations28 Aug 2017 Yalong Bai, Kuiyuan Yang, Tao Mei, Wei-Ying Ma, Tiejun Zhao

Large scale image dataset and deep convolutional neural network (DCNN) are two primary driving forces for the rapid progress made in generic object recognition tasks in recent years.

Object Recognition

Hierarchical Recurrent Attention Network for Response Generation

1 code implementation25 Jan 2017 Chen Xing, Wei Wu, Yu Wu, Ming Zhou, YaLou Huang, Wei-Ying Ma

With the word level attention, hidden vectors of a word level encoder are synthesized as utterance vectors and fed to an utterance level encoder to construct hidden representations of the context.

Response Generation

Dual Learning for Machine Translation

1 code implementation NeurIPS 2016 Yingce Xia, Di He, Tao Qin, Li-Wei Wang, Nenghai Yu, Tie-Yan Liu, Wei-Ying Ma

Based on the feedback signals generated during this process (e. g., the language-model likelihood of the output of a model, and the reconstruction error of the original sentence after the primal and dual translations), we can iteratively update the two models until convergence (e. g., using the policy gradient methods).

Language Modelling Machine Translation +4

Topic Aware Neural Response Generation

1 code implementation21 Jun 2016 Chen Xing, Wei Wu, Yu Wu, Jie Liu, YaLou Huang, Ming Zhou, Wei-Ying Ma

We consider incorporating topic information into the sequence-to-sequence framework to generate informative and interesting responses for chatbots.

Response Generation

LightLDA: Big Topic Models on Modest Compute Clusters

1 code implementation4 Dec 2014 Jinhui Yuan, Fei Gao, Qirong Ho, Wei Dai, Jinliang Wei, Xun Zheng, Eric P. Xing, Tie-Yan Liu, Wei-Ying Ma

When building large-scale machine learning (ML) programs, such as big topic models or deep neural nets, one usually assumes such tasks can only be attempted with industrial-sized clusters with thousands of nodes, which are out of reach for most practitioners or academic researchers.

Topic Models

Learning High-level Image Representation for Image Retrieval via Multi-Task DNN using Clickthrough Data

no code implementations17 Dec 2013 Yalong Bai, Kuiyuan Yang, Wei Yu, Wei-Ying Ma, Tiejun Zhao

Image retrieval refers to finding relevant images from an image database for a query, which is considered difficult for the gap between low-level representation of images and high-level representation of queries.

Image Retrieval Retrieval

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