Self-supervised Vision Foundation Models (VFMs) have become essential backbones for downstream tasks due to their strong and transferable visual representations. However, their patch-token-level features are often too coarse for dense prediction tasks such as semantic segmentation and depth estimation when accurate fine-grained predictions are required. Feature upsampling methods have been developed to recover pixel-level detail but still face limitations. Learnable upsamplers are often designed for a specific encoders and must be retrained for different encoders. Image-guided methods that use shallow pixel encoders often introduce textural artifacts and lack the semantic guidance needed for accurate downstream predictions. We introduce PixelUp, a zero-shot VFM-agnostic upsampler achieving semantic awareness through a coarse-to-fine chain of windowed cross-attention architecture guided by multi-scale semantic features. We demonstrate that PixelUp outperforms both VFM-specific and VFM-agnostic upsamplers, achieving state-of-the-art performance on dense prediction tasks with an average improvement of +1.2 mIoU on semantic segmentation and +0.25
δ1, on NYUv2 depth estimation across VFMs. PixelUp further improves training-free open-vocabulary and unsupervised semantic segmentation by an average of +1.3 mIoU and +0.5 mIoU, respectively. Code available at https://pixelup-project.vercel.app/