Jie Yang

Bio: Jie Yang is an academic researcher from Shanghai Jiao Tong University. The author has contributed to research in topics: Image segmentation & Segmentation. The author has an hindex of 46, co-authored 629 publications receiving 10558 citations. Previous affiliations of Jie Yang include East China University of Science and Technology & Chinese Ministry of Education.

Prediction of linear B-cell epitopes using amino acid pair antigenicity scale

Abstract: Identification of antigenic sites on proteins is of vital importance for developing synthetic peptide vaccines, immunodiagnostic tests and antibody production. Currently, most of the prediction algorithms rely on amino acid propensity scales using a sliding window approach. These methods are oversimplified and yield poor predicted results in practice. In this paper, a novel scale, called the amino acid pair (AAP) antigenicity scale, is proposed that is based on the finding that B-cell epitopes favor particular AAPs. It is demonstrated that, using SVM (support vector machine) classifier, the AAP antigenicity scale approach has much better performance than the existing scales based on the single amino acid propensity. The AAP antigenicity scale can reflect some special sequence-coupled feature in the B-cell epitopes, which is the essence why the new approach is superior to the existing ones. It is anticipated that with the continuous increase of the known epitope data, the power of the AAP antigenicity scale approach will be further enhanced.

Patch Alignment for Dimensionality Reduction

Abstract: Spectral analysis-based dimensionality reduction algorithms are important and have been popularly applied in data mining and computer vision applications. To date many algorithms have been developed, e.g., principal component analysis, locally linear embedding, Laplacian eigenmaps, and local tangent space alignment. All of these algorithms have been designed intuitively and pragmatically, i.e., on the basis of the experience and knowledge of experts for their own purposes. Therefore, it will be more informative to provide a systematic framework for understanding the common properties and intrinsic difference in different algorithms. In this paper, we propose such a framework, named "patch alignment,rdquo which consists of two stages: part optimization and whole alignment. The framework reveals that (1) algorithms are intrinsically different in the patch optimization stage and (2) all algorithms share an almost identical whole alignment stage. As an application of this framework, we develop a new dimensionality reduction algorithm, termed discriminative locality alignment (DLA), by imposing discriminative information in the part optimization stage. DLA can (1) attack the distribution nonlinearity of measurements; (2) preserve the discriminative ability; and (3) avoid the small-sample-size problem. Thorough empirical studies demonstrate the effectiveness of DLA compared with representative dimensionality reduction algorithms.

Multi-modal Curriculum Learning for Semi-supervised Image Classification.

Abstract: Semi-supervised image classification aims to classify a large quantity of unlabeled images by typically harnessing scarce labeled images. Existing semi-supervised methods often suffer from inadequate classification accuracy when encountering difficult yet critical images, such as outliers, because they treat all unlabeled images equally and conduct classifications in an imperfectly ordered sequence. In this paper, we employ the curriculum learning methodology by investigating the difficulty of classifying every unlabeled image. The reliability and the discriminability of these unlabeled images are particularly investigated for evaluating their difficulty. As a result, an optimized image sequence is generated during the iterative propagations, and the unlabeled images are logically classified from simple to difficult. Furthermore, since images are usually characterized by multiple visual feature descriptors, we associate each kind of features with a teacher, and design a multi-modal curriculum learning (MMCL) strategy to integrate the information from different feature modalities. In each propagation, each teacher analyzes the difficulties of the currently unlabeled images from its own modality viewpoint. A consensus is subsequently reached among all the teachers, determining the currently simplest images (i.e., a curriculum), which are to be reliably classified by the multi-modal learner. This well-organized propagation process leveraging multiple teachers and one learner enables our MMCL to outperform five state-of-the-art methods on eight popular image data sets.

Adaptive detection for infrared small target under sea-sky complex background

Abstract: An adaptive Butterworth highpass filter is presented to detect a small target under a sea-sky complex background. By calculating the weighted information entropy of different infrared images, the cutoff frequency of the filter can be changed adaptively. Experimental results show that it is a robust small target detection method.

Pattern Recognition and Machine Learning

Abstract: Probability Distributions.- Linear Models for Regression.- Linear Models for Classification.- Neural Networks.- Kernel Methods.- Sparse Kernel Machines.- Graphical Models.- Mixture Models and EM.- Approximate Inference.- Sampling Methods.- Continuous Latent Variables.- Sequential Data.- Combining Models.

“Bioinformatics” 특집을 내면서

Abstract: BIOE 402. Medical Technology Assessment. 2 or 3 hours. Bioentrepreneur course. Assessment of medical technology in the context of commercialization. Objectives, competition, market share, funding, pricing, manufacturing, growth, and intellectual property; many issues unique to biomedical products. Course Information: 2 undergraduate hours. 3 graduate hours. Prerequisite(s): Junior standing or above and consent of the instructor.