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Researcher profile

Quanying Liu

Quanying Liu contributes to research discovery and scholarly infrastructure.

ResearcherAffiliation not importedOpen to collaborate
Machine Learningeess.SPNeurons and Cognitioneess.IVArtificial IntelligenceComputer Visioneess.SYSystems and Control

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Published work

9 published item(s)

preprint2026arXiv

A geometry aware framework enhances noninvasive mapping of whole human brain dynamics

Non-invasive electrophysiology lacks methods that accurately reconstruct whole-brain spatiotemporal dynamics while incorporating individual cortical geometry, leaving current electroencephalography and magnetoencephalography source imaging limited by simplistic or biologically implausible priors. Here, we show that embedding participant-specific Geometric Basis Functions (GBFs), eigenmodes derived from each individual's cortical surface, provides a powerful anatomic constraint that resolves the inverse problem and improves reconstruction fidelity. The method reconstructs neural sources as linear combinations of geometric basis functions, thereby aligning source estimates with the geometric organization of neural dynamics. We validate GBF across the Meta-Source Benchmark, task-evoked data, resting-state networks, intracranial stimulation, and epilepsy data. The results demonstrate that GBF yields high localization accuracy and captures fast spatiotemporal dynamics consistent with anatomical pathways. These findings suggest that both spontaneous and evoked whole-brain activity can be described by hundreds of geometric modes, providing a compact yet accurate representation of neural sources. By linking cortical geometry to electrophysiological dynamics, GBF offers a versatile source imaging tool for both scientific and clinical applications.

0 citations0 reviewsNo code linkedOpen access
preprint2026arXiv

Pretraining Induces a Reusable Spectral Basis for Downstream Task Adaptation

Finetuning pretrained models occurs in a low-dimensional subspace of the full parameter space. Prior work has focused on characterizing this optimization subspace, but largely ignored the complementary question: why do certain directions remain unexplored during finetuning? Are these stable directions irrelevant to downstream tasks, or do they already encode task-relevant structure that requires no further adjustment? Answering this question is central to understanding how pretrained knowledge transfers. Through systematic spectral analysis across vision and language models, we show that the leading singular vectors of pretrained weight matrices remain highly stable under finetuning and are shared across unrelated downstream tasks, revealing that pretraining establishes a reusable spectral coordinate system. Models pretrained on larger datasets exhibit greater spectral stability under distribution shift or task change, directly linking pretraining scale to geometric transferability. Motivated by these findings, we propose a parameter-efficient method that freezes pretrained singular vectors and optimizes only leading spectral coefficients, achieving competitive performance on GLUE with 0.2% trainable parameters. Our results reveal that the stable directions encode transferable structure rather than irrelevant noise: successful pretraining discovers spectral bases that downstream tasks inherit and operate within.

0 citations0 reviewsNo code linkedOpen access
preprint2022arXiv

Deep Auto-encoder with Neural Response

Artificial neural network (ANN) is a versatile tool to study the neural representation in the ventral visual stream, and the knowledge in neuroscience in return inspires ANN models to improve performance in the task. However, it is still unclear how to merge these two directions into a unified framework. In this study, we propose an integrated framework called Deep Autoencoder with Neural Response (DAE-NR), which incorporates information from ANN and the visual cortex to achieve better image reconstruction performance and higher neural representation similarity between biological and artificial neurons. The same visual stimuli (i.e., natural images) are input to both the mice brain and DAE-NR. The encoder of DAE-NR jointly learns the dependencies from neural spike encoding and image reconstruction. For the neural spike encoding task, the features derived from a specific hidden layer of the encoder are transformed by a mapping function to predict the ground-truth neural response under the constraint of image reconstruction. Simultaneously, for the image reconstruction task, the latent representation obtained by the encoder is assigned to a decoder to restore the original image under the guidance of neural information. In DAE-NR, the learning process of encoder, mapping function and decoder are all implicitly constrained by these two tasks. Our experiments demonstrate that if and only if with the joint learning, DAE-NRs can improve the performance of visual image reconstruction and increase the representation similarity between biological neurons and artificial neurons. The DAE-NR offers a new perspective on the integration of computer vision and neuroscience.

0 citations0 reviewsNo code linkedOpen access
preprint2022arXiv

HyperNTF: A Hypergraph Regularized Nonnegative Tensor Factorization for Dimensionality Reduction

Tensor decomposition is an effective tool for learning multi-way structures and heterogeneous features from high-dimensional data, such as the multi-view images and multichannel electroencephalography (EEG) signals, are often represented by tensors. However, most of tensor decomposition methods are the linear feature extraction techniques, which are unable to reveal the nonlinear structure within high-dimensional data. To address such problem, a lot of algorithms have been proposed for simultaneously performs linear and non-linear feature extraction. A representative algorithm is the Graph Regularized Non-negative Matrix Factorization (GNMF) for image clustering. However, the normal 2-order graph can only models the pairwise similarity of objects, which cannot sufficiently exploit the complex structures of samples. Thus, we propose a novel method, named Hypergraph Regularized Non-negative Tensor Factorization (HyperNTF), which utilizes hypergraph to encode the complex connections among samples and employs the factor matrix corresponding with last mode of Canonical Polyadic (CP) decomposition as low-dimensional representation. Extensive experiments on synthetic manifolds, real-world image datasets, and EEG signals, demonstrating that HyperNTF outperforms the state-of-the-art methods in terms of dimensionality reduction, clustering, and classification.

0 citations0 reviewsNo code linkedOpen access
preprint2022arXiv

Immunofluorescence Capillary Imaging Segmentation: Cases Study

Nonunion is one of the challenges faced by orthopedics clinics for the technical difficulties and high costs in photographing interosseous capillaries. Segmenting vessels and filling capillaries are critical in understanding the obstacles encountered in capillary growth. However, existing datasets for blood vessel segmentation mainly focus on the large blood vessels of the body, and the lack of labeled capillary image datasets greatly limits the methodological development and applications of vessel segmentation and capillary filling. Here, we present a benchmark dataset, named IFCIS-155, consisting of 155 2D capillary images with segmentation boundaries and vessel fillings annotated by biomedical experts, and 19 large-scale, high-resolution 3D capillary images. To obtain better images of interosseous capillaries, we leverage state-of-the-art immunofluorescence imaging techniques to highlight the rich vascular morphology of interosseous capillaries. We conduct comprehensive experiments to verify the effectiveness of the dataset and the benchmarking deep learning models (\eg UNet/UNet++ and the modified UNet/UNet++). Our work offers a benchmark dataset for training deep learning models for capillary image segmentation and provides a potential tool for future capillary research. The IFCIS-155 dataset and code are all publicly available at \url{https://github.com/ncclabsustech/IFCIS-55}.

0 citations0 reviewsNo code linkedOpen access
preprint2022arXiv

Online Learning Koopman operator for closed-loop electrical neurostimulation in epilepsy

Electrical neuromodulation as a palliative treatment has been increasingly used in the control of epilepsy. However, current neuromodulations commonly implement predetermined actuation strategies and lack the capability of self-adaptively adjusting stimulation inputs. In this work, rooted in optimal control theory, we propose a Koopman-MPC framework for real-time closed-loop electrical neuromodulation in epilepsy, which integrates i) a deep Koopman operator based dynamical model to predict the temporal evolution of epileptic EEG with an approximate finite-dimensional linear dynamics and ii) a model predictive control (MPC) module to design optimal seizure suppression strategies. The Koopman operator based linear dynamical model is embedded in the latent state space of the autoencoder neural network, in which we can approximate and update the Koopman operator online. The linear dynamical property of the Koopman operator ensures the convexity of the optimization problem for subsequent MPC control. The proposed deep Koopman operator model shows greater predictive capability than the baseline models (e.g., vector autoregressive model, kernel based method and recurrent neural network (RNN)) in both synthetic and real epileptic EEG data. Moreover, compared with the RNN-MPC framework, our Koopman-MPC framework can suppress seizure dynamics with better computational efficiency in both the Jansen-Rit model and the Epileptor model. Koopman-MPC framework opens a new window for model-based closed-loop neuromodulation and sheds light on nonlinear neurodynamics and feedback control policies.

0 citations0 reviewsNo code linkedOpen access
preprint2022arXiv

Partial Least Square Regression via Three-factor SVD-type Manifold Optimization for EEG Decoding

Partial least square regression (PLSR) is a widely-used statistical model to reveal the linear relationships of latent factors that comes from the independent variables and dependent variables. However, traditional methods to solve PLSR models are usually based on the Euclidean space, and easily getting stuck into a local minimum. To this end, we propose a new method to solve the partial least square regression, named PLSR via optimization on bi-Grassmann manifold (PLSRbiGr). Specifically, we first leverage the three-factor SVD-type decomposition of the cross-covariance matrix defined on the bi-Grassmann manifold, converting the orthogonal constrained optimization problem into an unconstrained optimization problem on bi-Grassmann manifold, and then incorporate the Riemannian preconditioning of matrix scaling to regulate the Riemannian metric in each iteration. PLSRbiGr is validated with a variety of experiments for decoding EEG signals at motor imagery (MI) and steady-state visual evoked potential (SSVEP) task. Experimental results demonstrate that PLSRbiGr outperforms competing algorithms in multiple EEG decoding tasks, which will greatly facilitate small sample data learning.

0 citations0 reviewsNo code linkedOpen access
preprint2022arXiv

Transfer learning to decode brain states reflecting the relationship between cognitive tasks

Transfer learning improves the performance of the target task by leveraging the data of a specific source task: the closer the relationship between the source and the target tasks, the greater the performance improvement by transfer learning. In neuroscience, the relationship between cognitive tasks is usually represented by similarity of activated brain regions or neural representation. However, no study has linked transfer learning and neuroscience to reveal the relationship between cognitive tasks. In this study, we propose a transfer learning framework to reflect the relationship between cognitive tasks, and compare the task relations reflected by transfer learning and by the overlaps of brain regions (e.g., neurosynth). Our results of transfer learning create cognitive taskonomy to reflect the relationship between cognitive tasks which is well in line with the task relations derived from neurosynth. Transfer learning performs better in task decoding with fMRI data if the source and target cognitive tasks activate similar brain regions. Our study uncovers the relationship of multiple cognitive tasks and provides guidance for source task selection in transfer learning for neural decoding based on small-sample data.

0 citations0 reviewsNo code linkedOpen access
preprint2021arXiv

A novel convolutional neural network model to remove muscle artifacts from EEG

The recorded electroencephalography (EEG) signals are usually contaminated by many artifacts. In recent years, deep learning models have been used for denoising of electroencephalography (EEG) data and provided comparable performance with that of traditional techniques. However, the performance of the existing networks in electromyograph (EMG) artifact removal was limited and suffered from the over-fitting problem. Here we introduce a novel convolutional neural network (CNN) with gradually ascending feature dimensions and downsampling in time series for removing muscle artifacts in EEG data. Compared with other types of convolutional networks, this model largely eliminates the over-fitting and significantly outperforms four benchmark networks in EEGdenoiseNet. Our study suggested that the deep network architecture might help avoid overfitting and better remove EMG artifacts in EEG.

0 citations0 reviewsNo code linkedOpen access