A common strategy for Parameter-Efficient Fine-Tuning (PEFT) of pre-trained Vision Transformers (ViTs) involves adapting the model to downstream tasks by learning a low-rank adaptation matrix. This matrix is decomposed into a product of down-projection and up-projection matrices, with the bottleneck dimensionality being crucial for reducing the number of learnable parameters, as exemplified by prevalent methods like LoRA and Adapter. However, these low-rank strategies typically employ a fixed bottleneck dimensionality, which limits their flexibility in handling layer-wise variations. To address this limitation, we propose a novel PEFT approach inspired by Singular Value Decomposition (SVD) for representing the adaptation matrix. SVD decomposes a matrix into the product of a left unitary matrix, a diagonal matrix of scaling values, and a right unitary matrix. We utilize Householder transformations to construct orthogonal matrices that efficiently mimic the unitary matrices, requiring only a vector. The diagonal values are learned in a layer-wise manner, allowing them to flexibly capture the unique properties of each layer. This approach enables the generation of adaptation matrices with varying ranks across different layers, providing greater flexibility in adapting pre-trained models. Experiments on standard downstream vision tasks demonstrate that our method achieves promising fine-tuning performance.

A common strategy for Parameter-Efficient Fine-Tuning (PEFT) of pre-trained Vision Transformers (ViTs) involves adapting the model to downstream tasks by learning a low-rank adaptation matrix. This matrix is decomposed into a product of down-projection and up-projection matrices, with the bottleneck dimensionality being crucial for reducing the number of learnable parameters, as exemplified by prevalent methods like LoRA and Adapter. However, these low-rank strategies typically employ a fixed bottleneck dimensionality, which limits their flexibility in handling layer-wise variations. To address this limitation, we propose a novel PEFT approach inspired by Singular Value Decomposition (SVD) for representing the adaptation matrix. SVD decomposes a matrix into the product of a left unitary matrix, a diagonal matrix of scaling values, and a right unitary matrix.

High-dimensional longitudinal time series data is prevalent across various real-world applications. Many such applications can be modeled as regression problems with high-dimensional time series covariates. Deep learning has been a popular and powerful tool for fitting these regression models. Yet, the development of interpretable and reproducible deep-learning models is challenging and remains underexplored. This study introduces a novel method, Deep Learning Inference using Knockoffs for Time series data (DeepLINK-T), focusing on the selection of significant time series variables in regression while controlling the false discovery rate (FDR) at a predetermined level. DeepLINK-T combines deep learning with knockoff inference to control FDR in feature selection for time series models, accommodating a wide variety of feature distributions. It addresses dependencies across time and features by leveraging a time-varying latent factor structure in time series covariates. Three key ingredients for DeepLINK-T are 1) a Long Short-Term Memory (LSTM) autoencoder for generating time series knockoff variables, 2) an LSTM prediction network using both original and knockoff variables, and 3) the application of the knockoffs framework for variable selection with FDR control. Extensive simulation studies have been conducted to evaluate DeepLINK-T's performance, showing its capability to control FDR effectively while demonstrating superior feature selection power for high-dimensional longitudinal time series data compared to its non-time series counterpart. DeepLINK-T is further applied to three metagenomic data sets, validating its practical utility and effectiveness, and underscoring its potential in real-world applications.

In human neuroscience, machine learning can help reveal lower-dimensional neural representations relevant to subjects' behavior. However, state-of-the-art models typically require large datasets to train, so are prone to overfitting on human neuroimaging data that often possess few samples but many input dimensions. Here, we capitalized on the fact that the features we seek in human neuroscience are precisely those relevant to subjects' behavior. We thus developed a Task-Relevant Autoencoder via Classifier Enhancement (TRACE), and tested its ability to extract behaviorally-relevant, separable representations compared to a standard autoencoder, a variational autoencoder, and principal component analysis for two severely truncated machine learning datasets. We then evaluated all models on fMRI data from 59 subjects who observed animals and objects. TRACE outperformed all models nearly unilaterally, showing up to 12% increased classification accuracy and up to 56% improvement in discovering "cleaner", task-relevant representations. These results showcase TRACE's potential for a wide variety of data related to human behavior.