TASK DEFINITION: In this task, you are given the abstract of a research paper. Your task is to generate a summary of this abstract. Your summary should not be very short, but it's better if it's not more than 30 words.
PROBLEM: Profiling cellular phenotypes from microscopic imaging can provide meaningful biological information resulting from various factors affecting the cells. One motivating application is drug development: morphological cell features can be captured from images, from which similarities between different drugs applied at different dosages can be quantified. The general approach is to find a function mapping the images to an embedding space of manageable dimensionality whose geometry captures relevant features of the input images. An important known issue for such methods is separating relevant biological signal from nuisance variation. For example, the embedding vectors tend to be more correlated for cells that were cultured and imaged during the same week than for cells from a different week, despite having identical drug compounds applied in both cases. In this case, the particular batch a set of experiments were conducted in constitutes the domain of the data; an ideal set of image embeddings should contain only the relevant biological information (e.g. drug effects). We develop a general framework for adjusting the image embeddings in order to 'forget' domain-specific information while preserving relevant biological information. To do this, we minimize a loss function based on distances between marginal distributions (such as the Wasserstein distance) of embeddings across domains for each replicated treatment. For the dataset presented, the replicated treatment is the negative control. We find that for our transformed embeddings (1) the underlying geometric structure is not only preserved but the embeddings also carry improved biological signal (2) less domain-specific information is present.

SOLUTION: We correct nuisance variation for image embeddings across different domains, preserving only relevant information.

PROBLEM: First-order methods such as stochastic gradient descent (SGD) are currently the standard algorithm for training deep neural networks. Second-order methods, despite their better convergence rate, are rarely used in practice due to the pro- hibitive computational cost in calculating the second-order information. In this paper, we propose a novel Gram-Gauss-Newton (GGN) algorithm to train deep neural networks for regression problems with square loss. Our method draws inspiration from the connection between neural network optimization and kernel regression of neural tangent kernel (NTK). Different from typical second-order methods that have heavy computational cost in each iteration, GGN only has minor overhead compared to first-order methods such as SGD. We also give theoretical results to show that for sufficiently wide neural networks, the convergence rate of GGN is quadratic. Furthermore, we provide convergence guarantee for mini-batch GGN algorithm, which is, to our knowledge, the first convergence result for the mini-batch version of a second-order method on overparameterized neural net- works. Preliminary experiments on regression tasks demonstrate that for training standard networks, our GGN algorithm converges much faster and achieves better performance than SGD.

SOLUTION: A novel Gram-Gauss-Newton method to train neural networks, inspired by neural tangent kernel and Gauss-Newton method, with fast convergence speed both theoretically and experimentally.

PROBLEM: Many regularization methods have been proposed to prevent overfitting in neural networks. Recently, a regularization method has been proposed to optimize the variational lower bound of the Information Bottleneck Lagrangian. However, this method cannot be generalized to regular neural network architectures. We present the activation norm penalty that is derived from the information bottleneck principle and is theoretically grounded in a variation dropout framework. Unlike in previous literature, it can be applied to any general neural network. We demonstrate that this penalty can give consistent improvements to different state of the art architectures both in language modeling and image classification. We present analyses on the properties of this penalty and compare it to other methods that also reduce mutual information.

SOLUTION:
We derive a norm penalty on the output of the neural network from the information bottleneck perspective