arXiv subjects

Nannan Zhang

Publications and source records attributed to Nannan Zhang.

6 recordsLinked to original sources

arXiv2026

Suiren-1.0 Technical Report: A Family of Molecular Foundation Models

We introduce Suiren-1.0, a family of molecular foundation models for the accurate modeling of diverse organic systems. Suiren-1.0 comprising three specialized variants (Suiren-Base, Suiren-Dimer, and Suiren-ConfAvg) is integrated within an algorithmic framework that bridges the gap between 3D conformational geometry and 2D statistical ensemble spaces. We first pre-train Suiren-Base (1.8B parameters) on a 70M-sample Density Functional Theory dataset using spatial self-supervision and SE(3)-equivariant architectures, achieving robust performance in quantum property prediction. Suiren-Dimer extends this capability through continued pre-training on 13.5M intermolecular interaction samples. To enable efficient downstream application, we propose Conformation Compression Distillation (CCD), a diffusion-based framework that distills complex 3D structural representations into 2D conformation-averaged representations. This yields the lightweight Suiren-ConfAvg, which generates high-fidelity representations from SMILES or molecular graphs. Our extensive evaluations demonstrate that Suiren-1.0 establishes state-of-the-art results across a range of tasks. All models and benchmarks are open-sourced.

physics.chem-ph↗

arXiv2026

Eevee: Towards Close-up High-resolution Video-based Virtual Try-on

Video virtual try-on technology provides a cost-effective solution for creating marketing videos in fashion e-commerce. However, its practical adoption is hindered by two critical limitations. First, the reliance on a single garment image as input in current virtual try-on datasets limits the accurate capture of realistic texture details. Second, most existing methods focus solely on generating full-shot virtual try-on videos, neglecting the business's demand for videos that also provide detailed close-ups. To address these challenges, we introduce a high-resolution dataset for video-based virtual try-on. This dataset offers two key features. First, it provides more detailed information on the garments, which includes high-fidelity images with detailed close-ups and textual descriptions; Second, it uniquely includes full-shot and close-up try-on videos of real human models. Furthermore, accurately assessing consistency becomes significantly more critical for the close-up videos, which demand high-fidelity preservation of garment details. To facilitate such fine-grained evaluation, we propose a new garment consistency metric VGID (Video Garment Inception Distance) that quantifies the preservation of both texture and structure. Our experiments validate these contributions. We demonstrate that by utilizing the detailed images from our dataset, existing video generation models can extract and incorporate texture features, significantly enhancing the realism and detail fidelity of virtual try-on results. Furthermore, we conduct a comprehensive benchmark of recent models. The benchmark effectively identifies the texture and structural preservation problems among current methods.

cs.CV↗

arXiv2025

Self-supervised Deep Unrolled Model with Implicit Neural Representation Regularization for Accelerating MRI Reconstruction

Magnetic resonance imaging (MRI) is a vital clinical diagnostic tool, yet its application is limited by prolonged scan times. Accelerating MRI reconstruction addresses this issue by reconstructing high-fidelity MR images from undersampled k-space measurements. In recent years, deep learning-based methods have demonstrated remarkable progress. However, most methods rely on supervised learning, which requires large amounts of fully-sampled training data that are difficult to obtain. This paper proposes a novel zero-shot self-supervised reconstruction method named UnrollINR, which enables scan-specific MRI reconstruction without external training data. UnrollINR adopts a physics-guided unrolled reconstruction architecture and introduces implicit neural representation (INR) as a regularization prior to effectively constrain the solution space. This method overcomes the local bias limitation of CNNs in traditional deep unrolled methods and avoids the instability associated with relying solely on INR's implicit regularization in highly ill-posed scenarios. Consequently, UnrollINR significantly improves MRI reconstruction performance under high acceleration rates. Experimental results show that even at a high acceleration rate of 10, UnrollINR achieves superior reconstruction performance compared to supervised and self-supervised learning methods, validating its effectiveness and superiority.

cs.CV↗

arXiv2022

Multiscale topology classifies and quantifies cell types in subcellular spatial transcriptomics

Spatial transcriptomics has the potential to transform our understanding of RNA expression in tissues. Classical array-based technologies produce multiple-cell-scale measurements requiring deconvolution to recover single cell information. However, rapid advances in subcellular measurement of RNA expression at whole-transcriptome depth necessitate a fundamentally different approach. To integrate single-cell RNA-seq data with nanoscale spatial transcriptomics, we present a topological method for automatic cell type identification (TopACT). Unlike popular decomposition approaches to multicellular resolution data, TopACT is able to pinpoint the spatial locations of individual sparsely dispersed cells without prior knowledge of cell boundaries. Pairing TopACT with multiparameter persistent homology landscapes predicts immune cells forming a peripheral ring structure within kidney glomeruli in a murine model of lupus nephritis, which we experimentally validate with immunofluorescent imaging. The proposed topological data analysis unifies multiple biological scales, from subcellular gene expression to multicellular tissue organization.

q-bio.QM↗

arXiv2022

Queue-Aware STAR-RIS Assisted NOMA Communication Systems

In this paper, the queue-aware simultaneously transmitting and reflecting reconfigurable intelligent surfaces (STAR-RIS) assisted non-orthogonal multiple access (NOMA) communication system is investigated to ensure the system stability, where the long-term stability-oriented problem is reformulated to maximize the per-slot queue-weighted sum rate (QWSR) of users based on the Lyapunov drift theory. By jointly optimizing the NOMA decoding order, the active beamforming coefficients at the BS, and the passive transmission and reflection coefficients at the STAR-RIS, three STAR-RIS operating protocols are considered, namely energy splitting (ES), mode switching (MS), and time switching (TS). For ES, the blocked coordinate descent and the successive convex approximation methods are invoked to handle the highly-coupled and non-convex problem. For MS, the proposed algorithm is further extended to a penalty-based two-loop algorithm to solve the binary amplitude constrained problem. For TS, the formulated problem is decomposed into two subproblems, each of which can be solved in a similar manner to ES. Simulation results show that: i) our proposed STAR-RIS assisted NOMA communication achieves better performance than the conventional schemes; ii) the reformulated QWSR maximization problem confirms the system stability; and iii) TS achieves superior performance with respect to both the QWSR and the average queue length.

cs.IT↗

arXiv2019

Tumor Microenvironment-based Gene Signatures Divides Novel Immune and Stromal Subgroup Classification of Lung Adenocarcinoma

Tumor microenvironment has complex effects on tumorigenesis and metastasis. However, there is still a lack of comprehensive understanding of the relationship among molecular and cellular characteristics in tumor microenvironment, clinical prognosis and immunotherpy response. In this study, the immune and stromal (non-immune) signatures of tumor microenvironment were integrated to identify novel subgroups of lung adenocarcinoma by eigendecomposition and extraction algorithms of bioinformatics and machine learning, such as non-negative matrix factorization and multitask learning. Tumors were classified into 4 groups according to the activation of immunity and stroma by novel signatures. The 4 groups had different mutation landscape, molecular, cellular characteristics and prognosis, which have been validation in 6 independent data sets containing 1551 patients. High-immune and low-stromal activation group links to high immunocyte infiltration, high immunocompetence, low fibroblasts, endothelial cells, collagen, laminin, tumor mutation burden, and better overall survival. We developed a novel model based on tumor microenvironment by integrating immune and stromal activation, namely PMBT (prognostic model based on tumor microenvironment). The PMBT showed the value to predict overall survival and immunotherapy responses.

q-bio.GN↗