The Underlying Correlated Dynamics in Neural Training

Training of neural networks is a computationally intensive task. The significance of understanding and modeling the training dynamics is growing as increasingly larger networks are being trained. We propose in this work a model based on the correlation of the parameters' dynamics, which dramatically reduces the dimensionality. We refer to our algorithm as \emph{correlation mode decomposition} (CMD). It splits the parameter space into groups of parameters (modes) which behave in a highly correlated manner through the epochs. We achieve a remarkable dimensionality reduction with this approach, where networks like ResNet-18, transformers and GANs, containing millions of parameters, can be modeled well using just a few modes. We observe each typical time profile of a mode is spread throughout the network in all layers. Moreover, our model induces regularization which yields better generalization capacity on the test set. This representation enhances the understanding of the underlying training dynamics and can pave the way for designing better acceleration techniques.

BASiS: Batch Aligned Spectral Embedding Space

Graph is a highly generic and diverse representation, suitable for almost any data processing problem. Spectral graph theory has been shown to provide powerful algorithms, backed by solid linear algebra theory. It thus can be extremely instrumental to design deep network building blocks with spectral graph characteristics. For instance, such a network allows the design of optimal graphs for certain tasks or obtaining a canonical orthogonal low-dimensional embedding of the data. Recent attempts to solve this problem were based on minimizing Rayleigh-quotient type losses. We propose a different approach of directly learning the eigensapce. A severe problem of the direct approach, applied in batch-learning, is the inconsistent mapping of features to eigenspace coordinates in different batches. We analyze the degrees of freedom of learning this task using batches and propose a stable alignment mechanism that can work both with batch changes and with graph-metric changes. We show that our learnt spectral embedding is better in terms of NMI, ACC, Grassman distance, orthogonality and classification accuracy, compared to SOTA. In addition, the learning is more stable.

Understanding Transformer Memorization Recall Through Idioms

To produce accurate predictions, language models (LMs) must balance between generalization and memorization. Yet, little is known about the mechanism by which transformer LMs employ their memorization capacity. When does a model decide to output a memorized phrase, and how is this phrase then retrieved from memory? In this work, we offer the first methodological framework for probing and characterizing recall of memorized sequences in transformer LMs. First, we lay out criteria for detecting model inputs that trigger memory recall, and propose idioms as inputs that fulfill these criteria. Next, we construct a dataset of English idioms and use it to compare model behavior on memorized vs. non-memorized inputs. Specifically, we analyze the internal prediction construction process by interpreting the model's hidden representations as a gradual refinement of the output probability distribution. We find that across different model sizes and architectures, memorized predictions are a two-step process: early layers promote the predicted token to the top of the output distribution, and upper layers increase model confidence. This suggests that memorized information is stored and retrieved in the early layers of the network. Last, we demonstrate the utility of our methodology beyond idioms in memorized factual statements. Overall, our work makes a first step towards understanding memory recall, and provides a methodological basis for future studies of transformer memorization.

Unsupervised Detection of Sub-Territories of the Subthalamic Nucleus During DBS Surgery with Manifold Learning

During Deep Brain Stimulation(DBS) surgery for treating Parkinson's disease, one vital task is to detect a specific brain area called the Subthalamic Nucleus(STN) and a sub-territory within the STN called the Dorsolateral Oscillatory Region(DLOR). Accurate detection of the STN borders is crucial for adequate clinical outcomes. Currently, the detection is based on human experts, guided by supervised machine learning detection algorithms. Consequently, this procedure depends on the knowledge and experience of particular experts and on the amount and quality of the labeled data used for training the machine learning algorithms. In this paper, to circumvent the dependence and bias caused by the training data, we present a data-driven unsupervised method for detecting the STN and the DLOR during DBS surgery. Our method is based on an agnostic modeling approach for general target detection tasks. Given a set of measurements, we extract features and propose a variant of the Mahalanobis distance between these features. We show theoretically that this distance enhances the differences between measurements with different intrinsic characteristics. Then, we incorporate the new features and distances into a manifold learning method, called Diffusion Maps. We show that this method gives rise to a representation that is consistent with the underlying factors that govern the measurements. Since the construction of this representation is carried out without rigid modeling assumptions, it can facilitate a wide range of detection tasks; here, we propose a specification for the STN and DLOR detection tasks. We present detection results on 25 sets of measurements recorded from 16 patients during surgery. Compared to a competing supervised algorithm based on a Hidden Markov Model, our unsupervised method demonstrates similar results in the STN detection task and superior results in the DLOR detection task.

Supervised and Unsupervised End-to-End Deep Learning for Gene Ontology Classification of Neural In Situ Hybridization Images

In recent years, large datasets of high-resolution mammalian neural images have become available, which has prompted active research on the analysis of gene expression data. Traditional image processing methods are typically applied for learning functional representations of genes, based on their expressions in these brain images. In this paper, we describe a novel end-to-end deep learning-based method for generating compact representations of in situ hybridization (ISH) images, which are invariant-to-translation. In contrast to traditional image processing methods, our method relies, instead, on deep convolutional denoising autoencoders (CDAE) for processing raw pixel inputs, and generating the desired compact image representations. We provide an in-depth description of our deep learning-based approach, and present extensive experimental results, demonstrating that representations extracted by CDAE can help learn features of functional gene ontology categories for their classification in a highly accurate manner. Our methods improve the previous state-of-the-art classification rate (Liscovitch, et al.) from an average AUC of 0.92 to 0.997, i.e., it achieves 96% reduction in error rate. Furthermore, the representation vectors generated due to our method are more compact in comparison to previous state-of-the-art methods, allowing for a more efficient high-level representation of images. These results are obtained with significantly downsampled images in comparison to the original high-resolution ones, further underscoring the robustness of our proposed method.

DeepBrain: Functional Representation of Neural In-Situ Hybridization Images for Gene Ontology Classification Using Deep Convolutional Autoencoders

This paper presents a novel deep learning-based method for learning a functional representation of mammalian neural images. The method uses a deep convolutional denoising autoencoder (CDAE) for generating an invariant, compact representation of in situ hybridization (ISH) images. While most existing methods for bio-imaging analysis were not developed to handle images with highly complex anatomical structures, the results presented in this paper show that functional representation extracted by CDAE can help learn features of functional gene ontology categories for their classification in a highly accurate manner. Using this CDAE representation, our method outperforms the previous state-of-the-art classification rate, by improving the average AUC from 0.92 to 0.98, i.e., achieving 75% reduction in error. The method operates on input images that were downsampled significantly with respect to the original ones to make it computationally feasible.