TASK DEFINITION: In this task, you are given a part of an article. Your task is to generate headline (title) for this text. Preferred headlines are under fifteen words.
PROBLEM: Alignment-free sequence analysis approaches provide important alternatives over multiple sequence alignment (MSA) in biological sequence analysis because alignment-free approaches have low computation complexity and are not dependent on high level of sequence identity, however, most of the existing alignment-free methods do not employ true full information content of sequences and thus can not accurately reveal similarities and differences among DNA sequences. We present a novel alignment-free computational method for sequence analysis based on Ramanujan-Fourier transform (RFT), in which complete information of DNA sequences is retained. We represent DNA sequences as four binary indicator sequences and apply RFT on the indicator sequences to convert them into frequency domain. The Euclidean distance of the complete RFT coefficients of DNA sequences are used as similarity measure. To address the different lengths in Euclidean space of RFT coefficients, we pad zeros to short DNA binary sequences so that the binary sequences equal the longest length in the comparison sequence data. Thus, the DNA sequences are compared in the same dimensional frequency space without information loss. We demonstrate the usefulness of the proposed method by presenting experimental results on hierarchical clustering of genes and genomes. The proposed method opens a new channel to biological sequence analysis, classification, and structural module identification.

SOLUTION: A Novel Method for Comparative Analysis of DNA Sequences by Ramanujan-Fourier Transform

PROBLEM: Human interactions are characterized by explicit as well as implicit channels of communication. While the explicit channel transmits overt messages, the implicit ones transmit hidden messages about the communicator (e.g., his/her intentions and attitudes). There is a growing consensus that providing a computer with the ability to manipulate implicit affective cues should allow for a more meaningful and natural way of studying particular non-verbal signals of human-human communications by human-computer interactions [1], [2]. In this pilot study, we created a non-dynamic human-computer interaction while manipulating three specific non-verbal channels of communication: gaze pattern, facial expression, and gesture. Participants rated the virtual agent on affective dimensional scales (pleasure, arousal, and dominance) while their physiological signal (electrodermal activity, EDA) was captured during the interaction. Assessment of the behavioral data revealed a significant and complex three-way interaction between gaze, gesture, and facial configuration on the dimension of pleasure, as well as a main effect of gesture on the dimension of dominance. These results suggest a complex relationship between different non-verbal cues and the social context in which they are interpreted. Qualifying considerations as well as possible next steps are further discussed in light of these exploratory findings.

SOLUTION: Using Virtual Humans to Understand Real Ones

PROBLEM: We consider a transfer-learning problem by using the parameter transfer approach, where a suitable parameter of feature mapping is learned through one task and applied to another objective task. Then, we introduce the notion of the local stability of parametric feature mapping and parameter transfer learnability, and thereby derive a learning bound for parameter transfer algorithms. As an application of parameter transfer learning, we discuss the performance of sparse coding in selftaught learning. Although self-taught learning algorithms with plentiful unlabeled data often show excellent empirical performance, their theoretical analysis has not been studied. In this paper, we also provide the first theoretical learning bound for self-taught learning.

SOLUTION:
Learning Bound for Parameter Transfer Learning