A Molecular Multimodal Foundation Model Associating Molecule Graphs with Natural Language

12 September 2022

Jiangmeng Li

Papers citing "A Molecular Multimodal Foundation Model Associating Molecule Graphs with Natural Language"

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Title
ChemPile: A 250GB Diverse and Curated Dataset for Chemical Foundation Models Adrian Mirza Nawaf Alampara Martiño Ríos-García Mohamed Abdelalim Jack Butler ... Mark Worrall Adamo Young Philippe Schwaller Michael Pieler Kevin Maik Jablonka 7 0 0 18 May 2025
How to Detect and Defeat Molecular Mirage: A Metric-Driven Benchmark for Hallucination in LLM-based Molecular Comprehension Hao Li Liuzhenghao Lv He Cao Zijing Liu Zhiyuan Yan Yu Wang Yonghong Tian Yuan Li Li Yuan 32 0 0 10 Apr 2025
GraphT5: Unified Molecular Graph-Language Modeling via Multi-Modal Cross-Token Attention Sangyeup Kim Nayeon Kim Yinhua Piao Sun Kim 44 0 0 07 Mar 2025
MV-CLAM: Multi-View Molecular Interpretation with Cross-Modal Projection via Language Model Sumin Ha Jun Hyeong Kim Yinhua Piao Sun Kim 49 0 0 23 Feb 2025
From Generalist to Specialist: A Survey of Large Language Models for Chemistry Yang Han Ziping Wan Lu Chen Kai Yu Xin Chen LM&MA 35 1 0 31 Dec 2024
Towards Graph Foundation Models: Learning Generalities Across Graphs via Task-Trees Zehong Wang Zheyuan Zhang Tianyi Ma Nitesh V. Chawla Chuxu Zhang Yanfang Ye AI4CE 84 0 0 21 Dec 2024
GeomCLIP: Contrastive Geometry-Text Pre-training for Molecules Teng Xiao Chao Cui Huaisheng Zhu V. Honavar AI4CE CLIP 33 0 0 16 Nov 2024
Exploring Optimal Transport-Based Multi-Grained Alignments for Text-Molecule Retrieval Zijun Min Bingshuai Liu Li Zhang Jia Song Jinsong Su Song He Xiaochen Bo OT 67 1 0 04 Nov 2024
LLaMo: Large Language Model-based Molecular Graph Assistant Jinyoung Park Minseong Bae Dohwan Ko Hyunwoo J. Kim 42 1 0 31 Oct 2024
Chemical Language Model Linker: blending text and molecules with modular adapters Yifan Deng Spencer S. Ericksen Anthony Gitter 30 1 0 26 Oct 2024
Pretraining Graph Transformers with Atom-in-a-Molecule Quantum Properties for Improved ADMET Modeling Alessio Fallani Ramil I. Nugmanov Jose A. Arjona-Medina Jörg Kurt Wegner Alexandre Tkatchenko Kostiantyn Chernichenko MedIm AI4CE 34 0 0 10 Oct 2024
Text-guided Diffusion Model for 3D Molecule Generation Yanchen Luo Junfeng Fang Sihang Li Zhiyuan Liu Jiancan Wu An Zhang Wenjie Du Xiang Wang 39 6 0 04 Oct 2024
Large Language Models in Drug Discovery and Development: From Disease Mechanisms to Clinical Trials Yizhen Zheng Huan Yee Koh M. Yang Li Li Lauren T. May Geoffrey I. Webb Shirui Pan George Church LM&MA 44 9 0 06 Sep 2024
Instruction-Based Molecular Graph Generation with Unified Text-Graph Diffusion Model Yuran Xiang Haiteng Zhao Chang Ma Zhi-Hong Deng 29 0 0 19 Aug 2024
UniMoT: Unified Molecule-Text Language Model with Discrete Token Representation Jiayuan Zhu Yunli Qi Yongqiang Chen Quanming Yao 29 7 0 01 Aug 2024
GOFA: A Generative One-For-All Model for Joint Graph Language Modeling Lecheng Kong Jiarui Feng Hao Liu Chengsong Huang Jiaxin Huang Yixin Chen Muhan Zhang AI4CE 77 6 0 12 Jul 2024
MolFusion: Multimodal Fusion Learning for Molecular Representations via Multi-granularity Views Muzhen Cai Sendong Zhao Haochun Wang Yanrui Du Zewen Qiang Bing Qin Ting Liu 37 0 0 26 Jun 2024
HIGHT: Hierarchical Graph Tokenization for Graph-Language Alignment Yongqiang Chen Quanming Yao Juzheng Zhang James Cheng Yatao Bian 36 4 0 20 Jun 2024
PRESTO: Progressive Pretraining Enhances Synthetic Chemistry Outcomes He Cao Yanjun Shao Zhiyuan Liu Zijing Liu Xiangru Tang Yuan Yao Yu Li AI4CE 35 5 0 19 Jun 2024
MolecularGPT: Open Large Language Model (LLM) for Few-Shot Molecular Property Prediction Yuyan Liu Sirui Ding Sheng Zhou Wenqi Fan Qiaoyu Tan 42 8 0 18 Jun 2024
A Comprehensive Survey of Scientific Large Language Models and Their Applications in Scientific Discovery Yu Zhang Xiusi Chen Bowen Jin Sheng Wang Shuiwang Ji Wei Wang Jiawei Han 44 27 0 16 Jun 2024
Learning Multi-view Molecular Representations with Structured and Unstructured Knowledge Yizhen Luo Kai Yang Massimo Hong Xing Yi Liu Zikun Nie Hao Zhou Zaiqing Nie 46 2 0 14 Jun 2024
Introducing Diminutive Causal Structure into Graph Representation Learning Hang Gao Peng Qiao Yifan Jin Fengge Wu Jiangmeng Li Changwen Zheng 47 4 0 13 Jun 2024
MolX: Enhancing Large Language Models for Molecular Learning with A Multi-Modal Extension Khiem Le Zhichun Guo Kaiwen Dong Xiaobao Huang B. Nan Roshni G. Iyer Xiangliang Zhang Olaf Wiest Wei Wang Nitesh V. Chawla 41 8 0 10 Jun 2024
LLM and GNN are Complementary: Distilling LLM for Multimodal Graph Learning Junjie Xu Zongyu Wu Min Lin Xiang Zhang Suhang Wang 30 11 0 03 Jun 2024
ReactXT: Understanding Molecular "Reaction-ship" via Reaction-Contextualized Molecule-Text Pretraining Zhiyuan Liu Yaorui Shi An Zhang Sihang Li Enzhi Zhang Xiang Wang Kenji Kawaguchi Tat-Seng Chua 44 10 0 23 May 2024
GLaD: Synergizing Molecular Graphs and Language Descriptors for Enhanced Power Conversion Efficiency Prediction in Organic Photovoltaic Devices Thao Nguyen Tiara Torres-Flores Changhyun Hwang Carl Edwards Ying Diao Heng Ji 32 0 0 23 May 2024
ProtT3: Protein-to-Text Generation for Text-based Protein Understanding Zhiyuan Liu An Zhang Hao Fei Enzhi Zhang Xiang Wang Kenji Kawaguchi Tat-Seng Chua 60 17 0 21 May 2024
A Survey of Large Language Models for Graphs Xubin Ren Jiabin Tang Dawei Yin Nitesh V. Chawla Chao Huang 30 31 0 10 May 2024
Graph Machine Learning in the Era of Large Language Models (LLMs) Wenqi Fan Shijie Wang Jiani Huang Zhikai Chen Yu Song ... Haitao Mao Hui Liu Xiaorui Liu Dawei Yin Qing Li AI4CE 33 23 0 23 Apr 2024
Atomas: Hierarchical Alignment on Molecule-Text for Unified Molecule Understanding and Generation Yikun Zhang Geyan Ye Chaohao Yuan Bo Han Long-Kai Huang Jianhua Yao Wei Liu Yu Rong 31 3 0 23 Apr 2024
Harnessing the Power of Large Language Model for Uncertainty Aware Graph Processing Zhenyu Qian Yiming Qian Yuting Song Fei Gao Hai Jin Chen Yu Xia Xie 43 0 0 31 Mar 2024
Heterogeneous Contrastive Learning for Foundation Models and Beyond Lecheng Zheng Baoyu Jing Zihao Li Hanghang Tong Jingrui He VLM 40 19 0 30 Mar 2024
MoleculeQA: A Dataset to Evaluate Factual Accuracy in Molecular Comprehension Xingyu Lu He Cao Zijing Liu Shengyuan Bai Leqing Chen Yuan Yao Hai-Tao Zheng Yu Li HILM 21 7 0 13 Mar 2024
MolBind: Multimodal Alignment of Language, Molecules, and Proteins Teng Xiao Chao Cui Huaisheng Zhu V. Honavar AI4CE 40 8 0 13 Mar 2024
3M-Diffusion: Latent Multi-Modal Diffusion for Text-Guided Generation of Molecular Graphs Huaisheng Zhu Teng Xiao V. Honavar DiffM 40 5 0 11 Mar 2024
Bridging Text and Molecule: A Survey on Multimodal Frameworks for Molecule Yi Xiao Xiangxin Zhou Qiang Liu Liang Wang AI4CE 32 3 0 07 Mar 2024
Large Language Models are In-Context Molecule Learners Jiatong Li Wei Liu Zhihao Ding Wenqi Fan Yuqiang Li Qing Li 48 5 0 07 Mar 2024
DRAK: Unlocking Molecular Insights with Domain-Specific Retrieval-Augmented Knowledge in LLMs Jinzhe Liu Xiangsheng Huang Zhuo Chen Yin Fang 52 3 0 04 Mar 2024
Leveraging Biomolecule and Natural Language through Multi-Modal Learning: A Survey Qizhi Pei Lijun Wu Kaiyuan Gao Jinhua Zhu Yue Wang Zun Wang Tao Qin Rui Yan AI4CE 57 19 0 03 Mar 2024
BioT5+: Towards Generalized Biological Understanding with IUPAC Integration and Multi-task Tuning Qizhi Pei Lijun Wu Kaiyuan Gao Xiaozhuan Liang Yin Fang Jinhua Zhu Shufang Xie Tao Qin Rui Yan AI4CE 51 30 0 27 Feb 2024
L+M-24: Building a Dataset for Language + Molecules @ ACL 2024 Carl Edwards Qingyun Wang Lawrence Zhao Heng Ji 40 17 0 22 Feb 2024
ZeroG: Investigating Cross-dataset Zero-shot Transferability in Graphs Yuhan Li Peisong Wang Zhixun Li Jeffrey Xu Yu Jia Li 32 40 0 17 Feb 2024
ChemReasoner: Heuristic Search over a Large Language Model's Knowledge Space using Quantum-Chemical Feedback Henry W Sprueill Carl Edwards Khushbu Agarwal Mariefel V. Olarte Udishnu Sanyal Conrad Johnston Hongbin Liu Heng Ji Sutanay Choudhury LRM 36 7 0 15 Feb 2024
Impact of Domain Knowledge and Multi-Modality on Intelligent Molecular Property Prediction: A Systematic Survey Taojie Kuang Pengfei Liu Zhixiang Ren AI4CE 50 1 0 11 Feb 2024
Advancing Graph Representation Learning with Large Language Models: A Comprehensive Survey of Techniques Qiheng Mao Zemin Liu Chenghao Liu Zhuo Li Jianling Sun 22 7 0 04 Feb 2024
From Words to Molecules: A Survey of Large Language Models in Chemistry Chang Liao Yemin Yu Yu Mei Ying Wei 33 16 0 02 Feb 2024
Towards 3D Molecule-Text Interpretation in Language Models Sihang Li Zhiyuan Liu Yancheng Luo Xiang Wang Xiangnan He Kenji Kawaguchi Tat-Seng Chua Qi Tian AI4CE 35 42 0 25 Jan 2024
MolTailor: Tailoring Chemical Molecular Representation to Specific Tasks via Text Prompts Haoqiang Guo Sendong Zhao Hao Wang Yanrui Du Bing Qin AI4CE 21 8 0 21 Jan 2024
Large Language Models on Graphs: A Comprehensive Survey Bowen Jin Gang Liu Chi Han Meng Jiang Heng Ji Jiawei Han AI4CE 40 138 0 05 Dec 2023