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Search Results: 1 - 10 of 4754 matches for " CC Jay Kuo "
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GC content around splice sites affects splicing through pre-mRNA secondary structures
Jing Zhang, CC Jay Kuo, Liang Chen
BMC Genomics , 2011, DOI: 10.1186/1471-2164-12-90
Abstract: We observe that GC content around splice sites is closely associated with the splice site usage in multiple species. RNA secondary structure is the possible explanation, because the structural stability difference among alternative splice sites, constitutive splice sites, and skipped splice sites can be explained by the GC content difference. Alternative splice sites tend to be GC-enriched and exhibit more stable RNA secondary structures in all of the considered species. In humans and mice, splice sites of first exons and long exons tend to be GC-enriched and hence form more stable structures, indicating the special role of RNA secondary structures in promoter proximal splicing events and the splicing of long exons. In addition, GC-enriched exon-intron junctions tend to be overrepresented in tissue-specific alternative splice sites, indicating the functional consequence of the GC effect. Compared with regions far from splice sites and decoy splice sites, real splice sites are GC-enriched. We also found that the GC-content effect is much stronger than the nucleotide-order effect to form stable secondary structures.All of these results indicate that GC content is related to splice site usage and it may mediate the splicing process through RNA secondary structures.Pre-mRNA splicing in eukaryotes removes introns and joins exons together. It is catalyzed by the splicesome that is a large ribonucleoprotein complex with several hundred proteins and five small nuclear RNAs [1,2]. The recognition of splice sites requires multiple RNA binding proteins to bind to various splicing signals in pre-mRNAs. Genes can choose different sets of splice sites to produce multiple transcript isoforms, which further increases the complexity of splicing regulation. In eukaryotes, besides some short consensus sequence elements around the 5' splice site (5'ss), the 3' splice site (3'ss), the branch point, and the polypyrimidine tract, the splicing process needs other splicing regulatory elemen
Multimedia Encryption with Joint Randomized Entropy Coding and Rotation in Partitioned Bitstream
Dahua Xie,C.-C. Jay Kuo
EURASIP Journal on Information Security , 2007, DOI: 10.1155/2007/35262
Abstract: This work investigates the problem of efficient multimedia data encryption. A novel methodology is proposed to achieve encryption by controlling certain operations in the data compression process using a secret key. The new encryption approach consists of two cascaded modules. The first one is called randomized entropy coding (REC) while the second one is called rotation in partitioned bitstream (RPB). By leveraging the structure of the entropy coder, the joint REC/RPB encryption scheme incurs extremely low computational and implementation costs. Security analysis shows that the proposed scheme can withstand the ciphertext-only attack as well as the known/chosen plaintext attack. The efficiency and security of the proposed encryption scheme makes it an ideal choice in secure media applications where a large amount of multimedia data has to be encrypted/decrypted in real time.
Recovering Missing Coefficients in DCT-Transformed Images
Shujun Li,Andreas Karrenbauer,Dietmar Saupe,C. -C. Jay Kuo
Mathematics , 2012, DOI: 10.1109/ICIP.2011.6115738
Abstract: A general method for recovering missing DCT coefficients in DCT-transformed images is presented in this work. We model the DCT coefficients recovery problem as an optimization problem and recover all missing DCT coefficients via linear programming. The visual quality of the recovered image gradually decreases as the number of missing DCT coefficients increases. For some images, the quality is surprisingly good even when more than 10 most significant DCT coefficients are missing. When only the DC coefficient is missing, the proposed algorithm outperforms existing methods according to experimental results conducted on 200 test images. The proposed recovery method can be used for cryptanalysis of DCT based selective encryption schemes and other applications.
Collaborative Topic Regression with Social Matrix Factorization for Recommendation Systems
Sanjay Purushotham,Yan Liu,C. -C. Jay Kuo
Computer Science , 2012,
Abstract: Social network websites, such as Facebook, YouTube, Lastfm etc, have become a popular platform for users to connect with each other and share content or opinions. They provide rich information for us to study the influence of user's social circle in their decision process. In this paper, we are interested in examining the effectiveness of social network information to predict the user's ratings of items. We propose a novel hierarchical Bayesian model which jointly incorporates topic modeling and probabilistic matrix factorization of social networks. A major advantage of our model is to automatically infer useful latent topics and social information as well as their importance to collaborative filtering from the training data. Empirical experiments on two large-scale datasets show that our algorithm provides a more effective recommendation system than the state-of-the art approaches. Our results reveal interesting insight that the social circles have more influence on people's decisions about the usefulness of information (e.g., bookmarking preference on Delicious) than personal taste (e.g., music preference on Lastfm). We also examine and discuss solutions on potential information leak in many recommendation systems that utilize social information.
MCL-3D: a database for stereoscopic image quality assessment using 2D-image-plus-depth source
Rui Song,Hyunsuk Ko,C. C. Jay Kuo
Computer Science , 2014,
Abstract: A new stereoscopic image quality assessment database rendered using the 2D-image-plus-depth source, called MCL-3D, is described and the performance benchmarking of several known 2D and 3D image quality metrics using the MCL-3D database is presented in this work. Nine image-plus-depth sources are first selected, and a depth image-based rendering (DIBR) technique is used to render stereoscopic image pairs. Distortions applied to either the texture image or the depth image before stereoscopic image rendering include: Gaussian blur, additive white noise, down-sampling blur, JPEG and JPEG-2000 (JP2K) compression and transmission error. Furthermore, the distortion caused by imperfect rendering is also examined. The MCL-3D database contains 693 stereoscopic image pairs, where one third of them are of resolution 1024x728 and two thirds are of resolution 1920x1080. The pair-wise comparison was adopted in the subjective test for user friendliness, and the Mean Opinion Score (MOS) can be computed accordingly. Finally, we evaluate the performance of several 2D and 3D image quality metrics applied to MCL-3D. All texture images, depth images, rendered image pairs in MCL-3D and their MOS values obtained in the subjective test are available to the public (http://mcl.usc.edu/mcl-3d-database/) for future research and development.
A GMM-Based Stair Quality Model for Human Perceived JPEG Images
Sudeng Hu,Haiqiang Wang,C. -C. Jay Kuo
Computer Science , 2015,
Abstract: Based on the notion of just noticeable differences (JND), a stair quality function (SQF) was recently proposed to model human perception on JPEG images. Furthermore, a k-means clustering algorithm was adopted to aggregate JND data collected from multiple subjects to generate a single SQF. In this work, we propose a new method to derive the SQF using the Gaussian Mixture Model (GMM). The newly derived SQF can be interpreted as a way to characterize the mean viewer experience. Furthermore, it has a lower information criterion (BIC) value than the previous one, indicating that it offers a better model. A specific example is given to demonstrate the advantages of the new approach.
Multimodal Data Integration for Computer-Aided Ablation of Atrial Fibrillation
Jonghye Woo,Byung-Woo Hong,Sunil Kumar,Indranill Basu Ray,C.-C. Jay Kuo
Journal of Biomedicine and Biotechnology , 2008, DOI: 10.1155/2008/681303
Abstract: Image-guided percutaneous interventions have successfully replaced invasive surgical methods in some cardiologic practice, where the use of 3D-reconstructed cardiac images, generated by magnetic resonance imaging (MRI) and computed tomography (CT), plays an important role. To conduct computer-aided catheter ablation of atrial fibrillation accurately, multimodal information integration with electroanatomic mapping (EAM) data and MRI/CT images is considered in this work. Specifically, we propose a variational formulation for surface reconstruction and incorporate the prior shape knowledge, which results in a level set method. The proposed method enables simultaneous reconstruction and registration under nonrigid deformation. Promising experimental results show the potential of the proposed approach.
Progressive Syntax-Rich Coding of Multichannel Audio Sources
Yang Dai,Ai Hongmei,Kyriakakis Chris,Kuo C-C Jay
EURASIP Journal on Advances in Signal Processing , 2003,
Abstract: Being able to transmit the audio bitstream progressively is a highly desirable property for network transmission. MPEG- version audio supports fine grain bit rate scalability in the generic audio coder (GAC). It has a bit-sliced arithmetic coding (BSAC) tool, which provides scalability in the step of 1 Kbps per audio channel. There are also several other scalable audio coding methods, which have been proposed in recent years. However, these scalable audio tools are only available for mono and stereo audio material. Little work has been done on progressive coding of multichannel audio sources. MPEG advanced audio coding (AAC) is one of the most distinguished multichannel digital audio compression systems. Based on AAC, we develop in this work a progressive syntax-rich multichannel audio codec (PSMAC). It not only supports fine grain bit rate scalability for the multichannel audio bitstream but also provides several other desirable functionalities. A formal subjective listening test shows that the proposed algorithm achieves an excellent performance at several different bit rates when compared with MPEG AAC.
Determining Localized Tree Construction Schemes Based on Sensor Network Lifetime
Jae-Joon Lee,Bhaskar Krishnamachari,C.-C. Jay Kuo
EURASIP Journal on Wireless Communications and Networking , 2010, DOI: 10.1155/2010/350198
Ming-Ting Sun,C.-C. Jay Kuo,Eckehard Steinbach,Jie Chen
EURASIP Journal on Advances in Signal Processing , 2004, DOI: 10.1155/s1687617204002744
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