Directed Random Geometric Graph (DRGG)
Many real-world networks are intrinsically directed. Such networks include activation of genes, hyperlinks on the internet, and the network of followers on Twitter among many others. The challenge, however, is to create a network model that has many of the properties of real-world networks such as powerlaw degree distributions and the small-world property. To meet these challenges, we introduce the \textit{Directed} Random Geometric Graph (DRGG) model, which is an extension of the random geometric graph model. We prove that it is scale-free with respect to the indegree distribution, has binomial outdegree distribution, has a high clustering coefficient, has few edges and is likely small-world. These are some of the main features of aforementioned real world networks. We empirically observe that word association networks have many of the theoretical properties of the DRGG model. …

Convolutional Neural Network with Bar Images (CNN-BI)
Even though computational intelligence techniques have been extensively utilized in financial trading systems, almost all developed models use the time series data for price prediction or identifying buy-sell points. However, in this study we decided to use 2-D stock bar chart images directly without introducing any additional time series associated with the underlying stock. We propose a novel algorithmic trading model CNN-BI (Convolutional Neural Network with Bar Images) using a 2-D Convolutional Neural Network. We generated 2-D images of sliding windows of 30-day bar charts for Dow 30 stocks and trained a deep Convolutional Neural Network (CNN) model for our algorithmic trading model. We tested our model separately between 2007-2012 and 2012-2017 for representing different market conditions. The results indicate that the model was able to outperform Buy and Hold strategy, especially in trendless or bear markets. Since this is a preliminary study and probably one of the first attempts using such an unconventional approach, there is always potential for improvement. Overall, the results are promising and the model might be integrated as part of an ensemble trading model combined with different strategies. …

Feedback Generative Adversarial Network (FBGAN)
Generative Adversarial Networks (GANs) represent an attractive and novel approach to generate realistic data, such as genes, proteins, or drugs, in synthetic biology. Here, we apply GANs to generate synthetic DNA sequences encoding for proteins of variable length. We propose a novel feedback-loop architecture, called Feedback GAN (FBGAN), to optimize the synthetic gene sequences for desired properties using an external function analyzer. The proposed architecture also has the advantage that the analyzer need not be differentiable. We apply the feedback-loop mechanism to two examples: 1) generating synthetic genes coding for antimicrobial peptides, and 2) optimizing synthetic genes for the secondary structure of their resulting peptides. A suite of metrics demonstrate that the GAN generated proteins have desirable biophysical properties. The FBGAN architecture can also be used to optimize GAN-generated datapoints for useful properties in domains beyond genomics. …

Subspace Clustering (SC)
Subspace clustering is a technique which finds clusters within different subspaces (a selection of one or more dimensions). The underlying assumption is that we can find valid clusters which are defined by only a subset of dimensions (it is not needed to have the agreement of all N features). For example, if we consider as input patient data observing the gene expression level (we can have more than 20000 features), a cluster of patients suffering from Alzheimer can be found only by looking at the expression data of a subset of 100 genes, or stated differently, the subset exists in 100D. Stated differently, subspace clustering is an extension of traditional N dimensional cluster analysis which allows to simultaneously group features and observations by creating both row and column clusters. The resulting clusters may be overlapping both in the space of features and observations. …