The advent of single-cell Assay for Transposase-Accessible Chromatin using sequencing (scATAC-seq) offers an innovative perspective for deciphering regulatory mechanisms by assembling a vast repository of single-cell chromatin accessibility data. While foundation models have achieved significant success in single-cell transcriptomics, there is currently no foundation model for scATAC-seq that supports zero-shot high-quality cell identification and comprehensive multi-omics analysis simultaneously. Key challenges lie in the high dimensionality and sparsity of scATAC-seq data, as well as the lack of a standardized schema for representing open chromatin regions (OCRs). Here, we present ChromFound, a foundation model tailored for scATAC-seq. ChromFound utilizes a hybrid architecture and genome-aware tokenization to effectively capture genome-wide long contexts and regulatory signals from dynamic chromatin landscapes. Pretrained on 1.97 million cells from 30 tissues and 6 disease conditions, ChromFound demonstrates broad applicability across 6 diverse tasks. Notably, it achieves robust zero-shot performance in generating universal cell representations and exhibits excellent transferability in cell type annotation and cross-omics prediction. By uncovering enhancer-gene links undetected by existing computational methods, ChromFound offers a promising framework for understanding disease risk variants in the noncoding genome. The implementation of ChromFound is available via https://github.com/JohnsonKlose/ChromFound.

Next Point-of-Interest (POI) recommendation task focuses on predicting the immediate next position a user would visit, thus providing appealing location advice. In light of this, graph neural networks (GNNs) based models have recently been emerging as breakthroughs for this task due to their ability to learn global user preferences and alleviate cold-start challenges. Nevertheless, most existing methods merely focus on the relations between POIs, neglecting the higher-order information including user trajectories and the collaborative relations among trajectories. In this paper, we propose the Spatio-Temporal HyperGraph Convolutional Network (STHGCN). This model leverages a hypergraph to capture the trajectory-grain information and learn from user's historical trajectories (intra-user) as well as collaborative trajectories from other users (inter-user). Furthermore, a novel hypergraph transformer is introduced to effectively combine the hypergraph structure encoding with spatio-temporal information. Extensive experiments on real-world datasets demonstrate that our model outperforms the existing state-of-the-art methods and further analysis confirms the effectiveness in alleviating cold-start issues and achieving improved performance for both short and long trajectories.