Adversarial Multiscale Feature Learning for Overlapping Chromosome Segmentation

Chromosome karyotype analysis is of great clinical importance in the diagnosis and treatment of diseases, especially for genetic diseases. Since manual analysis is highly time and effort consuming, computer-assisted automatic chromosome karyotype analysis based on images is routinely used to improve the efficiency and accuracy of the analysis. Due to the strip shape of the chromosomes, they easily get overlapped with each other when imaged, significantly affecting the accuracy of the analysis afterward. Conventional overlapping chromosome segmentation methods are usually based on manually tagged features, hence, the performance of which is easily affected by the quality, such as resolution and brightness, of the images. To address the problem, in this paper, we present an adversarial multiscale feature learning framework to improve the accuracy and adaptability of overlapping chromosome segmentation. Specifically, we first adopt the nested U-shape network with dense skip connections as the generator to explore the optimal representation of the chromosome images by exploiting multiscale features. Then we use the conditional generative adversarial network (cGAN) to generate images similar to the original ones, the training stability of which is enhanced by applying the least-square GAN objective. Finally, we employ Lovasz-Softmax to help the model converge in a continuous optimization setting. Comparing with the established algorithms, the performance of our framework is proven superior by using public datasets in eight evaluation criteria, showing its great potential in overlapping chromosome segmentation

A Preliminary Study on Data Augmentation of Deep Learning for Image Classification

Deep learning models have a large number of freeparameters that need to be calculated by effective trainingof the models on a great deal of training data to improvetheir generalization performance. However, data obtaining andlabeling is expensive in practice. Data augmentation is one of themethods to alleviate this problem. In this paper, we conduct apreliminary study on how three variables (augmentation method,augmentation rate and size of basic dataset per label) can affectthe accuracy of deep learning for image classification. The studyprovides some guidelines: (1) it is better to use transformationsthat alter the geometry of the images rather than those justlighting and color. (2) 2-3 times augmentation rate is good enoughfor training. (3) the smaller amount of data, the more obviouscontributions could have.

Exploring the Deep Feature Space of a Cell Classification Neural Network

In this paper, we present contemporary techniques for visualising the feature space of a deep learning image classification neural network. These techniques are viewed in the context of a feed-forward network trained to classify low resolution fluorescence images of white blood cells captured using optofluidic imaging. The model has two output classes corresponding to two different cell types, which are often difficult to distinguish by eye. This paper has two major sections. The first looks to develop the information space presented by dimension reduction techniques, such as t-SNE, used to embed high-dimensional pre-softmax layer activations into a two-dimensional plane. The second section looks at feature visualisation by optimisation to generate feature images representing the learned features of the network. Using and developing these techniques we visualise class separation and structures within the dataset at various depths using clustering algorithms and feature images; track the development of feature complexity as we ascend the network; and begin to extract the features the network has learnt by modulating single-channel feature images with up-scaled neuron activation maps to distinguish their most salient parts.