Search Results for author: Yin Fang

Found 17 papers, 13 papers with code

The Power of Noise: Toward a Unified Multi-modal Knowledge Graph Representation Framework

1 code implementation11 Mar 2024 Zhuo Chen, Yin Fang, Yichi Zhang, Lingbing Guo, Jiaoyan Chen, Huajun Chen, Wen Zhang

In this work, to evaluate models' ability to accurately embed entities within MMKGs, we focus on two widely researched tasks: Multi-modal Knowledge Graph Completion (MKGC) and Multi-modal Entity Alignment (MMEA).

Knowledge Graph Completion Misconceptions +3

BioT5+: Towards Generalized Biological Understanding with IUPAC Integration and Multi-task Tuning

1 code implementation27 Feb 2024 Qizhi Pei, Lijun Wu, Kaiyuan Gao, Xiaozhuan Liang, Yin Fang, Jinhua Zhu, Shufang Xie, Tao Qin, Rui Yan

However, previous efforts like BioT5 faced challenges in generalizing across diverse tasks and lacked a nuanced understanding of molecular structures, particularly in their textual representations (e. g., IUPAC).

Forward reaction prediction Molecule Captioning +3

ChatCell: Facilitating Single-Cell Analysis with Natural Language

1 code implementation13 Feb 2024 Yin Fang, Kangwei Liu, Ningyu Zhang, Xinle Deng, Penghui Yang, Zhuo Chen, Xiangru Tang, Mark Gerstein, Xiaohui Fan, Huajun Chen

As Large Language Models (LLMs) rapidly evolve, their influence in science is becoming increasingly prominent.

Knowledge Graphs Meet Multi-Modal Learning: A Comprehensive Survey

3 code implementations8 Feb 2024 Zhuo Chen, Yichi Zhang, Yin Fang, Yuxia Geng, Lingbing Guo, Xiang Chen, Qian Li, Wen Zhang, Jiaoyan Chen, Yushan Zhu, Jiaqi Li, Xiaoze Liu, Jeff Z. Pan, Ningyu Zhang, Huajun Chen

In this survey, we carefully review over 300 articles, focusing on KG-aware research in two principal aspects: KG-driven Multi-Modal (KG4MM) learning, where KGs support multi-modal tasks, and Multi-Modal Knowledge Graph (MM4KG), which extends KG studies into the MMKG realm.

Entity Alignment Image Classification +4

Knowledgeable Preference Alignment for LLMs in Domain-specific Question Answering

1 code implementation11 Nov 2023 Yichi Zhang, Zhuo Chen, Yin Fang, Yanxi Lu, Fangming Li, Wen Zhang, Huajun Chen

Deploying large language models (LLMs) to real scenarios for domain-specific question answering (QA) is a key thrust for LLM applications, which poses numerous challenges, especially in ensuring that responses are both accommodating to user requirements and appropriately leveraging domain-specific knowledge bases.

Knowledge Graphs Question Answering

Rethinking Uncertainly Missing and Ambiguous Visual Modality in Multi-Modal Entity Alignment

1 code implementation30 Jul 2023 Zhuo Chen, Lingbing Guo, Yin Fang, Yichi Zhang, Jiaoyan Chen, Jeff Z. Pan, Yangning Li, Huajun Chen, Wen Zhang

As a crucial extension of entity alignment (EA), multi-modal entity alignment (MMEA) aims to identify identical entities across disparate knowledge graphs (KGs) by exploiting associated visual information.

 Ranked #1 on Multi-modal Entity Alignment on UMVM-oea-d-w-v2 (using extra training data)

Benchmarking Knowledge Graph Embeddings +2

Graph Sampling-based Meta-Learning for Molecular Property Prediction

1 code implementation29 Jun 2023 Xiang Zhuang, Qiang Zhang, Bin Wu, Keyan Ding, Yin Fang, Huajun Chen

To effectively utilize many-to-many correlations of molecules and properties, we propose a Graph Sampling-based Meta-learning (GS-Meta) framework for few-shot molecular property prediction.

Graph Sampling Meta-Learning +2

Mol-Instructions: A Large-Scale Biomolecular Instruction Dataset for Large Language Models

1 code implementation13 Jun 2023 Yin Fang, Xiaozhuan Liang, Ningyu Zhang, Kangwei Liu, Rui Huang, Zhuo Chen, Xiaohui Fan, Huajun Chen

Large Language Models (LLMs), with their remarkable task-handling capabilities and innovative outputs, have catalyzed significant advancements across a spectrum of fields.

Catalytic activity prediction Chemical-Disease Interaction Extraction +14

Revisit and Outstrip Entity Alignment: A Perspective of Generative Models

no code implementations24 May 2023 Lingbing Guo, Zhuo Chen, Jiaoyan Chen, Yin Fang, Wen Zhang, Huajun Chen

We then reveal that their incomplete objective limits the capacity on both entity alignment and entity synthesis (i. e., generating new entities).

Entity Alignment Generative Adversarial Network

Domain-Agnostic Molecular Generation with Chemical Feedback

1 code implementation26 Jan 2023 Yin Fang, Ningyu Zhang, Zhuo Chen, Lingbing Guo, Xiaohui Fan, Huajun Chen

The generation of molecules with desired properties has become increasingly popular, revolutionizing the way scientists design molecular structures and providing valuable support for chemical and drug design.

Language Modelling Molecular Docking +1

MEAformer: Multi-modal Entity Alignment Transformer for Meta Modality Hybrid

1 code implementation29 Dec 2022 Zhuo Chen, Jiaoyan Chen, Wen Zhang, Lingbing Guo, Yin Fang, Yufeng Huang, Yichi Zhang, Yuxia Geng, Jeff Z. Pan, Wenting Song, Huajun Chen

Multi-modal entity alignment (MMEA) aims to discover identical entities across different knowledge graphs (KGs) whose entities are associated with relevant images.

 Ranked #1 on Entity Alignment on FBYG15k (using extra training data)

Knowledge Graphs Multi-modal Entity Alignment

DUET: Cross-modal Semantic Grounding for Contrastive Zero-shot Learning

2 code implementations4 Jul 2022 Zhuo Chen, Yufeng Huang, Jiaoyan Chen, Yuxia Geng, Wen Zhang, Yin Fang, Jeff Z. Pan, Huajun Chen

Specifically, we (1) developed a cross-modal semantic grounding network to investigate the model's capability of disentangling semantic attributes from the images; (2) applied an attribute-level contrastive learning strategy to further enhance the model's discrimination on fine-grained visual characteristics against the attribute co-occurrence and imbalance; (3) proposed a multi-task learning policy for considering multi-model objectives.

Attribute Contrastive Learning +4

Knowledge-informed Molecular Learning: A Survey on Paradigm Transfer

no code implementations17 Feb 2022 Yin Fang, Zhuo Chen, Xiaohui Fan, Ningyu Zhang

To enhance the generation and decipherability of purely data-driven models, scholars have integrated biochemical domain knowledge into these molecular study models.

Molecular Property Prediction Property Prediction

Molecular Contrastive Learning with Chemical Element Knowledge Graph

1 code implementation1 Dec 2021 Yin Fang, Qiang Zhang, Haihong Yang, Xiang Zhuang, Shumin Deng, Wen Zhang, Ming Qin, Zhuo Chen, Xiaohui Fan, Huajun Chen

To address these issues, we construct a Chemical Element Knowledge Graph (KG) to summarize microscopic associations between elements and propose a novel Knowledge-enhanced Contrastive Learning (KCL) framework for molecular representation learning.

Contrastive Learning Molecular Property Prediction +3

Knowledge-aware Contrastive Molecular Graph Learning

no code implementations24 Mar 2021 Yin Fang, Haihong Yang, Xiang Zhuang, Xin Shao, Xiaohui Fan, Huajun Chen

Leveraging domain knowledge including fingerprints and functional groups in molecular representation learning is crucial for chemical property prediction and drug discovery.

Contrastive Learning Drug Discovery +5

Distributed Representations of Entities in Open-World Knowledge Graphs

no code implementations16 Oct 2020 Lingbing Guo, Zhuo Chen, Jiaoyan Chen, Yichi Zhang, Zequn Sun, Zhongpo Bo, Yin Fang, Xiaoze Liu, Huajun Chen, Wen Zhang

DAN leverages neighbor context as the query vector to score the neighbors of an entity, thereby distributing the entity semantics only among its neighbor embeddings.

Entity Alignment Graph Representation Learning +2

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