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Meta-analysis of massively parallel reporter assays enables prediction of regulatory function across cell types.
Deciphering the potential of noncoding loci to influence gene regulation has been the subject of intense research, with important implications in understanding genetic underpinnings of human diseases. Massively parallel reporter assays (MPRAs) can measure regulatory activity of thousands of DNA sequences and their variants in a single experiment. With increasing number of publically available MPRA data sets, one can now develop data-driven models which, given a DNA sequence, predict its regulatory activity. Here, we performed a comprehensive meta-analysis of several MPRA data sets in a variety of cellular contexts. We first applied an ensemble of methods to predict MPRA output in each context and observed that the most predictive features are consistent across data sets. We then demonstrate that predictive models trained in one cellular context can be used to predict MPRA output in another, with loss of accuracy attributed to cell-type-specific features. Finally, we show that our approach achieves top performance in the Fifth Critical Assessment of Genome Interpretation "Regulation Saturation" Challenge for predicting effects of single-nucleotide variants. Overall, our analysis provides insights into how MPRA data can be leveraged to highlight functional regulatory regions throughout the genome and can guide effective design of future experiments by better prioritizing regions of interest
First impressions: A survey on vision-based apparent personality trait analysis
© 2019 IEEE. Personal use of this material is permitted. Permission from IEEE must be obtained for all other uses, in any current or future media, including reprinting/republishing this material for advertising or promotional purposes,creating new collective works, for resale or redistribution to servers or lists, or reuse of any copyrighted component of this work in other works.Personality analysis has been widely studied in psychology, neuropsychology, and signal processing fields, among others. From the past few years, it also became an attractive research area in visual computing. From the computational point of view, by far speech and text have been the most considered cues of information for analyzing personality. However, recently there has been an increasing interest from the computer vision community in analyzing personality from visual data. Recent computer vision approaches are able to accurately analyze human faces, body postures and behaviors, and use these information to infer apparent personality traits. Because of the overwhelming research interest in this topic, and of the potential impact that this sort of methods could have in society, we present in this paper an up-to-date review of existing vision-based approaches for apparent personality trait recognition. We describe seminal and cutting edge works on the subject, discussing and comparing their distinctive features and limitations. Future venues of research in the field are identified and discussed. Furthermore, aspects on the subjectivity in data labeling/evaluation, as well as current datasets and challenges organized to push the research on the field are reviewed.Peer ReviewedPostprint (author's final draft
Knowledge-based Transfer Learning Explanation
Machine learning explanation can significantly boost machine learning's
application in decision making, but the usability of current methods is limited
in human-centric explanation, especially for transfer learning, an important
machine learning branch that aims at utilizing knowledge from one learning
domain (i.e., a pair of dataset and prediction task) to enhance prediction
model training in another learning domain. In this paper, we propose an
ontology-based approach for human-centric explanation of transfer learning.
Three kinds of knowledge-based explanatory evidence, with different
granularities, including general factors, particular narrators and core
contexts are first proposed and then inferred with both local ontologies and
external knowledge bases. The evaluation with US flight data and DBpedia has
presented their confidence and availability in explaining the transferability
of feature representation in flight departure delay forecasting.Comment: Accepted by International Conference on Principles of Knowledge
Representation and Reasoning, 201
Where and Who? Automatic Semantic-Aware Person Composition
Image compositing is a method used to generate realistic yet fake imagery by
inserting contents from one image to another. Previous work in compositing has
focused on improving appearance compatibility of a user selected foreground
segment and a background image (i.e. color and illumination consistency). In
this work, we instead develop a fully automated compositing model that
additionally learns to select and transform compatible foreground segments from
a large collection given only an input image background. To simplify the task,
we restrict our problem by focusing on human instance composition, because
human segments exhibit strong correlations with their background and because of
the availability of large annotated data. We develop a novel branching
Convolutional Neural Network (CNN) that jointly predicts candidate person
locations given a background image. We then use pre-trained deep feature
representations to retrieve person instances from a large segment database.
Experimental results show that our model can generate composite images that
look visually convincing. We also develop a user interface to demonstrate the
potential application of our method.Comment: 10 pages, 9 figure
Intrinsic Motivation Systems for Autonomous Mental Development
Exploratory activities seem to be intrinsically rewarding
for children and crucial for their cognitive development.
Can a machine be endowed with such an intrinsic motivation
system? This is the question we study in this paper, presenting a number of computational systems that try to capture this drive towards novel or curious situations. After discussing related research coming from developmental psychology, neuroscience, developmental robotics, and active learning, this paper presents the mechanism of Intelligent Adaptive Curiosity, an intrinsic motivation system which pushes a robot towards situations in which it maximizes its learning progress. This drive makes the robot focus on situations which are neither too predictable nor too unpredictable, thus permitting autonomous mental development.The complexity of the robot’s activities autonomously increases and complex developmental sequences self-organize without being constructed in a supervised manner. Two experiments are presented illustrating the stage-like organization emerging with this mechanism. In one of them, a physical robot is placed on a baby play mat with objects that it can learn to manipulate. Experimental results show that the robot first spends time in situations
which are easy to learn, then shifts its attention progressively to situations of increasing difficulty, avoiding situations in which nothing can be learned. Finally, these various results are discussed in relation to more complex forms of behavioral organization and data coming from developmental psychology.
Key words: Active learning, autonomy, behavior, complexity,
curiosity, development, developmental trajectory, epigenetic
robotics, intrinsic motivation, learning, reinforcement learning,
values
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