Bird's eye view (BEV) representation has emerged as a dominant solution for describing 3D space in autonomous driving scenarios. However, objects in the BEV representation typically exhibit small sizes, and the associated point cloud context is inherently sparse, which leads to great challenges for reliable 3D perception. In this paper, we propose IS-Fusion, an innovative multimodal Fusion framework that jointly captures the Instance- and Scene-level contextual information. IS-Fusion essentially differs from existing approaches that only focus on the BEV scene-level fusion by explicitly incorporating instance-level multimodal information, thus facilitating the instance-centric tasks like 3D object detection. It comprises a Hierarchical Scene Fusion (HSF) module and an Instance-Guided Fusion (IGF) module. HSF applies Point-to-Grid and Grid-to-Region transformers to capture the multimodal scene context at different granularities. This leads to enriched scene-level features that are later used to generate high-quality instance features. Next, IGF explores the relationships between these instances, and aggregates the local multimodal context for each instance. These instances then serve as guidance to enhance the scene feature and yield an instance-aware BEV representation. On the challenging nuScenes benchmark, IS-Fusion outperforms all the published multimodal works to date. Notably, it achieves 72.8% mAP on the nuScenes validation set, outperforming prior art like BEVFusion by 4.3% mAP. Code shall be released.