Advancements in Molecular Property Prediction: A Survey of Single and Multimodal Approaches
- URL: http://arxiv.org/abs/2408.09461v2
- Date: Thu, 22 Aug 2024 07:59:30 GMT
- Title: Advancements in Molecular Property Prediction: A Survey of Single and Multimodal Approaches
- Authors: Tanya Liyaqat, Tanvir Ahmad, Chandni Saxena,
- Abstract summary: Molecular Property Prediction (MPP) plays a pivotal role across diverse domains, spanning drug discovery, material science, and environmental chemistry.
Recent years have witnessed remarkable strides in MPP, fueled by the exponential growth of chemical data and the evolution of artificial intelligence.
This article explores recent AI/based approaches in MPP, focusing on both single and multiple modality representation techniques.
- Score: 1.0446041735532203
- License: http://creativecommons.org/licenses/by/4.0/
- Abstract: Molecular Property Prediction (MPP) plays a pivotal role across diverse domains, spanning drug discovery, material science, and environmental chemistry. Fueled by the exponential growth of chemical data and the evolution of artificial intelligence, recent years have witnessed remarkable strides in MPP. However, the multifaceted nature of molecular data, such as molecular structures, SMILES notation, and molecular images, continues to pose a fundamental challenge in its effective representation. To address this, representation learning techniques are instrumental as they acquire informative and interpretable representations of molecular data. This article explores recent AI/-based approaches in MPP, focusing on both single and multiple modality representation techniques. It provides an overview of various molecule representations and encoding schemes, categorizes MPP methods by their use of modalities, and outlines datasets and tools available for feature generation. The article also analyzes the performance of recent methods and suggests future research directions to advance the field of MPP.
Related papers
- Learning Multi-view Molecular Representations with Structured and Unstructured Knowledge [14.08112359246334]
We present MV-Mol, a representation learning model that harvests multi-view molecular expertise from chemical structures, unstructured knowledge from biomedical texts, and structured knowledge from knowledge graphs.
We show that MV-Mol provides improved representations that substantially benefit molecular property prediction.
arXiv Detail & Related papers (2024-06-14T08:48:10Z) - Data-Efficient Molecular Generation with Hierarchical Textual Inversion [48.816943690420224]
We introduce Hierarchical textual Inversion for Molecular generation (HI-Mol), a novel data-efficient molecular generation method.
HI-Mol is inspired by the importance of hierarchical information, e.g., both coarse- and fine-grained features, in understanding the molecule distribution.
Compared to the conventional textual inversion method in the image domain using a single-level token embedding, our multi-level token embeddings allow the model to effectively learn the underlying low-shot molecule distribution.
arXiv Detail & Related papers (2024-05-05T08:35:23Z) - Leveraging Biomolecule and Natural Language through Multi-Modal
Learning: A Survey [75.47055414002571]
The integration of biomolecular modeling with natural language (BL) has emerged as a promising interdisciplinary area at the intersection of artificial intelligence, chemistry and biology.
We provide an analysis of recent advancements achieved through cross modeling of biomolecules and natural language.
arXiv Detail & Related papers (2024-03-03T14:59:47Z) - Multi-Modal Representation Learning for Molecular Property Prediction:
Sequence, Graph, Geometry [6.049566024728809]
Deep learning-based molecular property prediction has emerged as a solution to the resource-intensive nature of traditional methods.
In this paper, we propose a novel multi-modal representation learning model, called SGGRL, for molecular property prediction.
To ensure consistency across modalities, SGGRL is trained to maximize the similarity of representations for the same molecule while minimizing similarity for different molecules.
arXiv Detail & Related papers (2024-01-07T02:18:00Z) - Molecular Property Prediction Based on Graph Structure Learning [29.516479802217205]
We propose a graph structure learning (GSL) based MPP approach, called GSL-MPP.
Specifically, we first apply graph neural network (GNN) over molecular graphs to extract molecular representations.
With molecular fingerprints, we construct a molecular similarity graph (MSG)
arXiv Detail & Related papers (2023-12-28T06:45:13Z) - MultiModal-Learning for Predicting Molecular Properties: A Framework Based on Image and Graph Structures [2.5563339057415218]
MolIG is a novel MultiModaL molecular pre-training framework for predicting molecular properties based on Image and Graph structures.
It amalgamates the strengths of both molecular representation forms.
It exhibits enhanced performance in downstream tasks pertaining to molecular property prediction within benchmark groups.
arXiv Detail & Related papers (2023-11-28T10:28:35Z) - Implicit Geometry and Interaction Embeddings Improve Few-Shot Molecular
Property Prediction [53.06671763877109]
We develop molecular embeddings that encode complex molecular characteristics to improve the performance of few-shot molecular property prediction.
Our approach leverages large amounts of synthetic data, namely the results of molecular docking calculations.
On multiple molecular property prediction benchmarks, training from the embedding space substantially improves Multi-Task, MAML, and Prototypical Network few-shot learning performance.
arXiv Detail & Related papers (2023-02-04T01:32:40Z) - PEMP: Leveraging Physics Properties to Enhance Molecular Property
Prediction [33.715410811008375]
We propose Physics properties Enhanced Molecular Property prediction (PEMP) to utilize relations between molecular properties revealed by previous physics theory and physical chemistry studies.
We design two different methods for PEMP, respectively based on multi-task learning and transfer learning.
Experimental results on public benchmark MoleculeNet show that the proposed methods have the ability to outperform corresponding state-of-the-art models.
arXiv Detail & Related papers (2022-10-18T07:40:58Z) - A Molecular Multimodal Foundation Model Associating Molecule Graphs with
Natural Language [63.60376252491507]
We propose a molecular multimodal foundation model which is pretrained from molecular graphs and their semantically related textual data.
We believe that our model would have a broad impact on AI-empowered fields across disciplines such as biology, chemistry, materials, environment, and medicine.
arXiv Detail & Related papers (2022-09-12T00:56:57Z) - Graph-based Molecular Representation Learning [59.06193431883431]
Molecular representation learning (MRL) is a key step to build the connection between machine learning and chemical science.
Recently, MRL has achieved considerable progress, especially in methods based on deep molecular graph learning.
arXiv Detail & Related papers (2022-07-08T17:43:20Z) - Few-Shot Graph Learning for Molecular Property Prediction [46.60746023179724]
We propose Meta-MGNN, a novel model for few-shot molecular property prediction.
To exploit unlabeled molecular information, Meta-MGNN further incorporates molecular structure, attribute based self-supervised modules and self-attentive task weights.
Extensive experiments on two public multi-property datasets demonstrate that Meta-MGNN outperforms a variety of state-of-the-art methods.
arXiv Detail & Related papers (2021-02-16T01:55:34Z)
This list is automatically generated from the titles and abstracts of the papers in this site.
This site does not guarantee the quality of this site (including all information) and is not responsible for any consequences.