Human-scene interaction is an active research topic with several industrial applications in virtual reality, gaming, robotics, and surveillance. Despite significant progress in network architectures to improve the results or optimize models' parameters for fast inference speed, the efficient representation of contact between humans and their environments remains an open challenge. In this paper, we propose a new efficient human-contact representation for human-scene interaction. Our primary contribution is the introduction of sparse contact masks that strategically select essential contact information, significantly reducing redundant data in high-dimensional inputs. Leveraging this efficient contact representation, we propose a suite of sparse operators to replace traditional dense operators within deep network layers for faster computation. Our approach not only enhances computational speed but also filters out non-essential contact data, thereby improving the precision of human-scene interaction models. To validate the effectiveness of our method, we conduct intensive experiments across three public benchmark datasets, focusing on two critical tasks for human-scene interaction: contact prediction and scene synthesis. The experimental results show that our approach outperforms state-of-the-art models in reconstruction accuracy and achieves a computation speed-up of at least 12 times over recent baselines.
Multiple Sequence Alignments (MSAs) provide protein language models with explicit evolutionary context, but their large depth makes subsampling unavoidable under limited token budgets. Existing strategies, including random selection, identity-based filtering, and diversity-driven sampling, are effective heuristics, yet provide limited control over the evolutionary signals retained in the subset. In this work, we recast MSA subsampling as an explicit optimization problem, where key evolutionary measures, including query identity and diversity, are treated as controllable objectives. Building on this view, we introduce AP-REASONER, an Affinity-Propagation-based factor-graph approach. With evolution-aware unary factors, exemplar-consistency factors, and two control knobs, AP-REASONER performs factor-graph reasoning through message passing to infer a fixed-budget MSA subset. Experiments on long-range contact prediction and conformational ensemble prediction show that AP-REASONER outperforms baseline subsamplers on structure-sensitive downstream tasks and enables controllable recovery of alternative protein conformations. These results highlight the value of modeling MSA subsampling as a controllable optimization problem, where factor-graph reasoning offers an effective alternative to heuristic selection.
Protein language models learn transferable sequence representations. However, because they primarily model contextual dependencies along amino-acid sequences, their training objectives do not explicitly constrain the model to learn three-dimensional residue contacts formed after folding . Here, we introduce LC-SEPLM (Long-range Contact-supervised ESM Protein Language Model), which adapts ESM2 with LoRA and long-range residue-pair contact supervision while retaining sequence-only downstream inference. Pair-specific queries use cross-attention over the complete sequence to extract global sequence context associated with long-range spatial contacts. To expose the model to diverse structural information, we trained LC-SEPLM on 500,000 AlphaFold Swiss-Prot proteins. In downstream evaluation, LC-SEPLM improved all eight protein-level tasks relative to ESM2. The largest gain occurred in remote-homology recognition, where macro-F1 increased from 0.6122 to 0.6769 (+0.0647, or 6.47 percentage points). On the official ESM-S EC benchmark, LC-SEPLM also outperformed ESM-S with a maximum absolute gain of 0.1771. These results support residue-pair contact supervision as a bounded route for introducing structural information into protein sequence representations while preserving sequence-only inference.