Estimating the geometric and volumetric properties of transparent deformable liquids is challenging due to optical complexities and dynamic surface deformations induced by container movements. Autonomous robots performing precise liquid manipulation tasks, such as dispensing, aspiration, and mixing, must handle containers in ways that inevitably induce these deformations, complicating accurate liquid state assessment. Current datasets lack comprehensive physics-informed simulation data representing realistic liquid behaviors under diverse dynamic scenarios. To bridge this gap, we introduce Phys-Liquid, a physics-informed dataset comprising 97,200 simulation images and corresponding 3D meshes, capturing liquid dynamics across multiple laboratory scenes, lighting conditions, liquid colors, and container rotations. To validate the realism and effectiveness of Phys-Liquid, we propose a four-stage reconstruction and estimation pipeline involving liquid segmentation, multi-view mask generation, 3D mesh reconstruction, and real-world scaling. Experimental results demonstrate improved accuracy and consistency in reconstructing liquid geometry and volume, outperforming existing benchmarks. The dataset and associated validation methods facilitate future advancements in transparent liquid perception tasks. The dataset and code are available at https://dualtransparency.github.io/Phys-Liquid/.