Comment on "Contrastive pre-training and 3D convolution neural network for RNA and small molecule binding affinity prediction" by Sun and Gao.
作者信息
Krishnan Sowmya Ramaswamy, Roy Arijit, Gromiha M Michael
机构信息
Department of Biotechnology, Bhupat and Jyoti Mehta School of Biosciences, Indian Institute of Technology Madras, Chennai 600036, India.
TCS Research (Life Sciences Division), Tata Consultancy Services, Hyderabad 500081, India.
出版信息
Bioinformatics. 2025 Jun 2;41(6). doi: 10.1093/bioinformatics/btaf163.
Abstract
摘要
相似文献
1
Comment on "Contrastive pre-training and 3D convolution neural network for RNA and small molecule binding affinity prediction" by Sun and Gao.对孙和高所著的《用于RNA和小分子结合亲和力预测的对比预训练和3D卷积神经网络》的评论
Bioinformatics. 2025 Jun 2;41(6). doi: 10.1093/bioinformatics/btaf163.
2
Rebuttal letter of the "comment on "contrastive pre-training and 3D convolution neural network for RNA and small molecule binding affinity prediction" by Sun and Gao".对孙和高所著的《关于“用于RNA和小分子结合亲和力预测的对比预训练与3D卷积神经网络”的评论》的反驳信
Bioinformatics. 2025 Jul 1;41(7). doi: 10.1093/bioinformatics/btaf164.
3
Contrastive pre-training and 3D convolution neural network for RNA and small molecule binding affinity prediction.基于对比预训练和 3D 卷积神经网络的 RNA 和小分子结合亲和力预测。
Bioinformatics. 2024 Mar 29;40(4). doi: 10.1093/bioinformatics/btae155.
4
AffiGrapher: Contrastive Heterogeneous Graph Learning with Aromatic Virtual Nodes for RNA-Small Molecule Binding Affinity Prediction.AffiGrapher：用于RNA-小分子结合亲和力预测的带芳香虚拟节点的对比异质图学习
J Chem Inf Model. 2025 Jul 14;65(13):7263-7276. doi: 10.1021/acs.jcim.5c00798. Epub 2025 Jun 26.
5
Neural network dose prediction for cervical brachytherapy: Overcoming data scarcity for applicator-specific models.神经网络在宫颈癌近距离治疗中的剂量预测：克服施源器特异性模型的数据匮乏问题。
Med Phys. 2024 Jul;51(7):4591-4606. doi: 10.1002/mp.17230. Epub 2024 May 30.
6
Automated instance segmentation and registration of spinal vertebrae from CT-Scans with an improved 3D U-net neural network and corner point registration.使用改进的3D U-net神经网络和角点配准技术对CT扫描图像中的脊椎进行自动实例分割和配准。
Comput Biol Med. 2025 Sep;196(Pt A):110663. doi: 10.1016/j.compbiomed.2025.110663. Epub 2025 Jul 8.
7
Self-Supervised Contrastive Learning for Medical Time Series: A Systematic Review.自监督对比学习在医学时间序列中的应用：系统综述。
Sensors (Basel). 2023 Apr 23;23(9):4221. doi: 10.3390/s23094221.
8
A Contrastive Learning-Enhanced Residual Network for Predicting Epileptic Seizures Using EEG Signals.一种用于利用脑电图信号预测癫痫发作的对比学习增强残差网络。
Int J Neural Syst. 2025 Jul 16:2550050. doi: 10.1142/S0129065725500509.
9
TAC-ECG: A task-adaptive classification method for electrocardiogram based on cross-modal contrastive learning and low-rank convolutional adapter.TAC-ECG：一种基于跨模态对比学习和低秩卷积适配器的心电图任务自适应分类方法。
Comput Methods Programs Biomed. 2025 Oct;270:108918. doi: 10.1016/j.cmpb.2025.108918. Epub 2025 Jul 5.
10
A sequential recommendation method using contrastive learning and Wasserstein self-attention mechanism.一种使用对比学习和瓦瑟斯坦自注意力机制的序列推荐方法。
PeerJ Comput Sci. 2025 Mar 26;11:e2749. doi: 10.7717/peerj-cs.2749. eCollection 2025.
本文引用的文献
1
Contrastive pre-training and 3D convolution neural network for RNA and small molecule binding affinity prediction.基于对比预训练和 3D 卷积神经网络的 RNA 和小分子结合亲和力预测。
Bioinformatics. 2024 Mar 29;40(4). doi: 10.1093/bioinformatics/btae155.
2
Reliable method for predicting the binding affinity of RNA-small molecule interactions using machine learning.利用机器学习预测 RNA-小分子相互作用结合亲和力的可靠方法。
Brief Bioinform. 2024 Jan 22;25(2). doi: 10.1093/bib/bbae002.
3
Comparative Assessment of Pose Prediction Accuracy in RNA-Ligand Docking.RNA-配体对接中姿态预测准确性的比较评估
J Chem Inf Model. 2023 Dec 11;63(23):7444-7452. doi: 10.1021/acs.jcim.3c01533. Epub 2023 Nov 16.
4
R-SIM: A Database of Binding Affinities for RNA-small Molecule Interactions.R-SIM：RNA与小分子相互作用的结合亲和力数据库。
J Mol Biol. 2023 Jul 15;435(14):167914. doi: 10.1016/j.jmb.2022.167914. Epub 2022 Dec 7.
5
Discovery of small molecules that target a tertiary-structured RNA.靶向三级结构 RNA 的小分子的发现。
Proc Natl Acad Sci U S A. 2022 Nov 29;119(48):e2213117119. doi: 10.1073/pnas.2213117119. Epub 2022 Nov 21.
6
AnnapuRNA: A scoring function for predicting RNA-small molecule binding poses.AnnapuRNA：一种预测RNA与小分子结合构象的评分函数。
PLoS Comput Biol. 2021 Feb 1;17(2):e1008309. doi: 10.1371/journal.pcbi.1008309. eCollection 2021 Feb.
7
Forging the Basis for Developing Protein-Ligand Interaction Scoring Functions.为开发蛋白质-配体相互作用评分函数奠定基础。
Acc Chem Res. 2017 Feb 21;50(2):302-309. doi: 10.1021/acs.accounts.6b00491. Epub 2017 Feb 9.
8
A machine learning approach to predicting protein-ligand binding affinity with applications to molecular docking.一种基于机器学习的蛋白质 - 配体结合亲和力预测方法及其在分子对接中的应用。
Bioinformatics. 2010 May 1;26(9):1169-75. doi: 10.1093/bioinformatics/btq112. Epub 2010 Mar 17.
9
AutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading.AutoDock Vina：通过新的评分函数、高效优化和多线程改进对接的速度和准确性。
J Comput Chem. 2010 Jan 30;31(2):455-61. doi: 10.1002/jcc.21334.
10
High-resolution molecular discrimination by RNA.通过RNA进行高分辨率分子鉴别
Science. 1994 Mar 11;263(5152):1425-9. doi: 10.1126/science.7510417.
Zotero 插件