Traditional machine learning vs. deep learning from dynamic graph representations of proteins' 3D folds in the task of protein structure classification

Protein structure classification (PSC) uses supervised learning to predict a protein's CATH/SCOP(e) class from the protein's sequence or 3D structural feature(s). We already modeled 3D structures as (static) protein structure networks (PSNs), demonstrating the competitiveness of PSN-based features to sequence or direct (i.e. non-network) 3D structural features in the PSC task. More recently, we demonstrated the power of features extracted from dynamic PSNs over features extracted from static PSNs (and thus by transitivity over sequence and direct 3D structural features) in the same task. That dynamic PSN approach used traditional machine learning (ML), combining manual (pre-engineered) features with an off-the-shelf classifier. Here, we evaluate whether automatic deep learning (DL) from the dynamic PSNs yields improvements. Our evaluation on 72 datasets spanning ~44,000 CATH- or SCOPe-labeled dynamic PSNs reveals that in terms of PSC accuracy, traditional ML and DL are (close to) tied for a large majority of the datasets, while DL is on average 10+ times slower. We are the first to evaluate traditional ML vs. DL in the dynamic PSN-based PSC task.

Jointly Predicting Job Performance, Personality, Cognitive Ability, Affect, and Well-Being

Assessment of job performance, personalized health and psychometric measures are domains where data-driven and ubiquitous computing exhibits the potential of a profound impact in the future. Existing techniques use data extracted from questionnaires, sensors (wearable, computer, etc.), or other traits, to assess well-being and cognitive attributes of individuals. However, these techniques can neither predict individual's well-being and psychological traits in a global manner nor consider the challenges associated to processing the data available, that is incomplete and noisy. In this paper, we create a benchmark for predictive analysis of individuals from a perspective that integrates: physical and physiological behavior, psychological states and traits, and job performance. We design data mining techniques as benchmark and uses real noisy and incomplete data derived from wearable sensors to predict 19 constructs based on 12 standardized well-validated tests. The study included 757 participants who were knowledge workers in organizations across the USA with varied work roles. We developed a data mining framework to extract the meaningful predictors for each of the 19 variables under consideration. Our model is the first benchmark that combines these various instrument-derived variables in a single framework to understand people's behavior by leveraging real uncurated data from wearable, mobile, and social media sources. We verify our approach experimentally using the data obtained from our longitudinal study. The results show that our framework is consistently reliable and capable of predicting the variables under study better than the baselines when prediction is restricted to the noisy, incomplete data.

The power of dynamic social networks to predict individuals' mental health

Precision medicine has received attention both in and outside the clinic. We focus on the latter, by exploiting the relationship between individuals' social interactions and their mental health to develop a predictive model of one's likelihood to be depressed or anxious from rich dynamic social network data. To our knowledge, we are the first to do this. Existing studies differ from our work in at least one aspect: they do not model social interaction data as a network; they do so but analyze static network data; they examine "correlation" between social networks and health but without developing a predictive model; or they study other individual traits but not mental health. In a systematic and comprehensive evaluation, we show that our predictive model that uses dynamic social network data is superior to its static network as well as non-network equivalents when run on the same data.

Heterogeneous network approach to predict individuals' mental health

Depression and anxiety are critical public health issues affecting millions of people around the world. To identify individuals who are vulnerable to depression and anxiety, predictive models have been built that typically utilize data from one source. Unlike these traditional models, in this study, we leverage a rich heterogeneous data set from the University of Notre Dame's NetHealth study that collected individuals' (student participants') social interaction data via smartphones, health-related behavioral data via wearables (Fitbit), and trait data from surveys. To integrate the different types of information, we model the NetHealth data as a heterogeneous information network (HIN). Then, we redefine the problem of predicting individuals' mental health conditions (depression or anxiety) in a novel manner, as applying to our HIN a popular paradigm of a recommender system (RS), which is typically used to predict the preference that a person would give to an item (e.g., a movie or book). In our case, the items are the individuals' different mental health states. We evaluate three state-of-the-art RS approaches. Also, we model the prediction of individuals' mental health as another problem type -- that of node classification (NC) in our HIN, evaluating in the process four node features under logistic regression as a proof-of-concept classifier. We find that our RS and NC network methods produce more accurate predictions than a logistic regression model using the same NetHealth data in the traditional non-network fashion as well as a random-approach. Also, we find that RS outperforms NC. This is the first study to integrate smartphone, wearable sensor, and survey data in an HIN manner and use RS or NC on the HIN to predict individuals' mental health conditions.