Herb Target Prediction Based on Representation Learning of Symptom related Heterogeneous Network.

Traditional Chinese Medicine (TCM) has received increasing attention as a complementary approach or alternative to modern medicine. However, experimental methods for identifying novel targets of TCM herbs heavily relied on the current available herb-compound-target relationships. In this work, we present an Herb-Target Interaction Network (HTINet) approach, a novel network integration pipeline for herb-target prediction mainly relying on the symptom related associations. HTINet focuses on capturing the low-dimensional feature vectors for both herbs and proteins by network embedding, which incorporate the topological properties of nodes across multi-layered heterogeneous network, and then performs supervised learning based on these low-dimensional feature representations. HTINet obtains performance improvement over a well-established random walk based herb-target prediction method. Furthermore, we have manually validated several predicted herb-target interactions from independent literatures. These results indicate that HTINet can be used to integrate heterogeneous information to predict novel herb-target interactions

On multi-view learning with additive models

In many scientific settings data can be naturally partitioned into variable groupings called views. Common examples include environmental (1st view) and genetic information (2nd view) in ecological applications, chemical (1st view) and biological (2nd view) data in drug discovery. Multi-view data also occur in text analysis and proteomics applications where one view consists of a graph with observations as the vertices and a weighted measure of pairwise similarity between observations as the edges. Further, in several of these applications the observations can be partitioned into two sets, one where the response is observed (labeled) and the other where the response is not (unlabeled). The problem for simultaneously addressing viewed data and incorporating unlabeled observations in training is referred to as multi-view transductive learning. In this work we introduce and study a comprehensive generalized fixed point additive modeling framework for multi-view transductive learning, where any view is represented by a linear smoother. The problem of view selection is discussed using a generalized Akaike Information Criterion, which provides an approach for testing the contribution of each view. An efficient implementation is provided for fitting these models with both backfitting and local-scoring type algorithms adjusted to semi-supervised graph-based learning. The proposed technique is assessed on both synthetic and real data sets and is shown to be competitive to state-of-the-art co-training and graph-based techniques.Comment: Published in at http://dx.doi.org/10.1214/08-AOAS202 the Annals of Applied Statistics (http://www.imstat.org/aoas/) by the Institute of Mathematical Statistics (http://www.imstat.org

AI for the Common Good?! Pitfalls, challenges, and Ethics Pen-Testing

Recently, many AI researchers and practitioners have embarked on research visions that involve doing AI for "Good". This is part of a general drive towards infusing AI research and practice with ethical thinking. One frequent theme in current ethical guidelines is the requirement that AI be good for all, or: contribute to the Common Good. But what is the Common Good, and is it enough to want to be good? Via four lead questions, I will illustrate challenges and pitfalls when determining, from an AI point of view, what the Common Good is and how it can be enhanced by AI. The questions are: What is the problem / What is a problem?, Who defines the problem?, What is the role of knowledge?, and What are important side effects and dynamics? The illustration will use an example from the domain of "AI for Social Good", more specifically "Data Science for Social Good". Even if the importance of these questions may be known at an abstract level, they do not get asked sufficiently in practice, as shown by an exploratory study of 99 contributions to recent conferences in the field. Turning these challenges and pitfalls into a positive recommendation, as a conclusion I will draw on another characteristic of computer-science thinking and practice to make these impediments visible and attenuate them: "attacks" as a method for improving design. This results in the proposal of ethics pen-testing as a method for helping AI designs to better contribute to the Common Good.Comment: to appear in Paladyn. Journal of Behavioral Robotics; accepted on 27-10-201