ibm-research/otter_primekg

--- license: mit --- # Otter PrimeKG Dataset Card The Otter PrimeKG dataset contains 12,757,257 triples with Proteins, Drugs and Diseases. It contains protein sequences, SMILES and text ## Dataset details #### PrimeKG PrimeKG (the Precision Medicine Knowledge Graph) integrates 20 biomedical resources, it describes 17,080 diseases with 4 million relationships. PrimeKG includes nodes describing Gene/Proteins (29,786) and Drugs (7,957 nodes). The Multimodal Knowledge Graph (MKG) that we built from PrimeKG contains 13 modalities, 12,757,300 edges (154,130 data properties, and 12,603,170 object properties), including 642,150 edges describing interactions between proteins, 25,653 edges describing drug-protein interactions, and 2,672,628 describing interactions between drugs. **Original dataset:** - [GitHub Repo](https://zitniklab.hms.harvard.edu/projects/PrimeKG) - Citation: Chandak, P., Huang, K. & Zitnik, M. Building a knowledge graph to enable precision medicine. Sci Data 10, 67 (2023). https://doi.org/10.1038/s41597-023-01960-3 **Paper or resources for more information:** - [GitHub Repo](https://github.com/IBM/otter-knowledge) - [Paper](https://arxiv.org/abs/2306.12802) **License:** MIT **Where to send questions or comments about the dataset:** - [GitHub Repo](https://github.com/IBM/otter-knowledge) **Models trained on Otter PrimeKG** - [ibm/otter_primekg_classifier](https://huggingface.co/ibm/otter_primekg_classifier) - [ibm/otter_primekg_distmult](https://huggingface.co/ibm/otter_primekg_distmult) - [ibm/otter_primekg_transe](https://huggingface.co/ibm/otter_primekg_transe)---许可证：MIT--- # Otter PrimeKG 数据集卡片 Otter PrimeKG 数据集包含12,757,257条三元组，涵盖蛋白质、药物与疾病三类实体，包含蛋白质序列、SMILES（简化分子线性输入规范）与文本数据。 ## 数据集详情 #### PrimeKG PrimeKG（Precision Medicine Knowledge Graph，精准医学知识图谱）整合了20个生物医学资源，覆盖17,080种疾病与400万条关联关系。PrimeKG包含描述基因/蛋白质（29,786个节点）与药物（7,957个节点）的实体节点。我们基于PrimeKG构建的多模态知识图谱（Multimodal Knowledge Graph, MKG）包含13种模态、12,757,300条边（其中154,130条为数据属性边，12,603,170条为对象属性边），涵盖642,150条描述蛋白质间相互作用的边、25,653条描述药物-蛋白质相互作用的边，以及2,672,628条描述药物间相互作用的边。 **原始数据集：** - [GitHub仓库](https://zitniklab.hms.harvard.edu/projects/PrimeKG) - 引用文献：Chandak, P., Huang, K. & Zitnik, M. Building a knowledge graph to enable precision medicine. Sci Data 10, 67 (2023). https://doi.org/10.1038/s41597-023-01960-3 **获取更多信息的论文与资源：** - [GitHub仓库](https://github.com/IBM/otter-knowledge) - [学术论文](https://arxiv.org/abs/2306.12802) **许可证：** MIT协议 **关于该数据集的疑问与意见反馈渠道：** - [GitHub仓库](https://github.com/IBM/otter-knowledge) **基于Otter PrimeKG训练的模型：** - [ibm/otter_primekg_classifier](https://huggingface.co/ibm/otter_primekg_classifier) - [ibm/otter_primekg_distmult](https://huggingface.co/ibm/otter_primekg_distmult) - [ibm/otter_primekg_transe](https://huggingface.co/ibm/otter_primekg_transe)