ASGS: an alternative splicing graph web service

Alternative transcript diversity manifests itself a prime cause of complexity in higher eukaryotes. The Alternative Splicing Graph Server (ASGS) is a web service facilitating the systematic study of alternatively spliced genes of higher eukaryotes by generating splicing graphs for the compact visual representation of transcript diversity from a single gene. Taking a set of transcripts in General Feature Format as input, ASGS identifies distinct reference and variable exons, generates a transcript splicing graph, an exon summary, splicing events classification and a single line graph to facilitate experimental analysis. This freely available web service can be accessed at

Latent Semantic Learning with Structured Sparse Representation for Human Action Recognition

This paper proposes a novel latent semantic learning method for extracting high-level features (i.e. latent semantics) from a large vocabulary of abundant mid-level features (i.e. visual keywords) with structured sparse representation, which can help to bridge the semantic gap in the challenging task of human action recognition. To discover the manifold structure of midlevel features, we develop a spectral embedding approach to latent semantic learning based on L1-graph, without the need to tune any parameter for graph construction as a key step of manifold learning. More importantly, we construct the L1-graph with structured sparse representation, which can be obtained by structured sparse coding with its structured sparsity ensured by novel L1-norm hypergraph regularization over mid-level features. In the new embedding space, we learn latent semantics automatically from abundant mid-level features through spectral clustering. The learnt latent semantics can be readily used for human action recognition with SVM by defining a histogram intersection kernel. Different from the traditional latent semantic analysis based on topic models, our latent semantic learning method can explore the manifold structure of mid-level features in both L1-graph construction and spectral embedding, which results in compact but discriminative high-level features. The experimental results on the commonly used KTH action dataset and unconstrained YouTube action dataset show the superior performance of our method.Comment: The short version of this paper appears in ICCV 201

Discrete Multi-modal Hashing with Canonical Views for Robust Mobile Landmark Search

Mobile landmark search (MLS) recently receives increasing attention for its great practical values. However, it still remains unsolved due to two important challenges. One is high bandwidth consumption of query transmission, and the other is the huge visual variations of query images sent from mobile devices. In this paper, we propose a novel hashing scheme, named as canonical view based discrete multi-modal hashing (CV-DMH), to handle these problems via a novel three-stage learning procedure. First, a submodular function is designed to measure visual representativeness and redundancy of a view set. With it, canonical views, which capture key visual appearances of landmark with limited redundancy, are efficiently discovered with an iterative mining strategy. Second, multi-modal sparse coding is applied to transform visual features from multiple modalities into an intermediate representation. It can robustly and adaptively characterize visual contents of varied landmark images with certain canonical views. Finally, compact binary codes are learned on intermediate representation within a tailored discrete binary embedding model which preserves visual relations of images measured with canonical views and removes the involved noises. In this part, we develop a new augmented Lagrangian multiplier (ALM) based optimization method to directly solve the discrete binary codes. We can not only explicitly deal with the discrete constraint, but also consider the bit-uncorrelated constraint and balance constraint together. Experiments on real world landmark datasets demonstrate the superior performance of CV-DMH over several state-of-the-art methods

Compressed k2-Triples for Full-In-Memory RDF Engines

Current "data deluge" has flooded the Web of Data with very large RDF datasets. They are hosted and queried through SPARQL endpoints which act as nodes of a semantic net built on the principles of the Linked Data project. Although this is a realistic philosophy for global data publishing, its query performance is diminished when the RDF engines (behind the endpoints) manage these huge datasets. Their indexes cannot be fully loaded in main memory, hence these systems need to perform slow disk accesses to solve SPARQL queries. This paper addresses this problem by a compact indexed RDF structure (called k2-triples) applying compact k2-tree structures to the well-known vertical-partitioning technique. It obtains an ultra-compressed representation of large RDF graphs and allows SPARQL queries to be full-in-memory performed without decompression. We show that k2-triples clearly outperforms state-of-the-art compressibility and traditional vertical-partitioning query resolution, remaining very competitive with multi-index solutions.Comment: In Proc. of AMCIS'201

Chain Reduction for Binary and Zero-Suppressed Decision Diagrams

Chain reduction enables reduced ordered binary decision diagrams (BDDs) and zero-suppressed binary decision diagrams (ZDDs) to each take advantage of the others' ability to symbolically represent Boolean functions in compact form. For any Boolean function, its chain-reduced ZDD (CZDD) representation will be no larger than its ZDD representation, and at most twice the size of its BDD representation. The chain-reduced BDD (CBDD) of a function will be no larger than its BDD representation, and at most three times the size of its CZDD representation. Extensions to the standard algorithms for operating on BDDs and ZDDs enable them to operate on the chain-reduced versions. Experimental evaluations on representative benchmarks for encoding word lists, solving combinatorial problems, and operating on digital circuits indicate that chain reduction can provide significant benefits in terms of both memory and execution time

Passive interferometric symmetries of multimode Gaussian pure states

As large-scale multimode Gaussian states begin to become accessible in the laboratory, their representation and analysis become a useful topic of research in their own right. The graphical calculus for Gaussian pure states provides powerful tools for their representation, while this work presents a useful tool for their analysis: passive interferometric (i.e., number-conserving) symmetries. Here we show that these symmetries of multimode Gaussian states simplify calculations in measurement-based quantum computing and provide constructive tools for engineering large-scale harmonic systems with specific physical properties, and we provide a general mathematical framework for deriving them. Such symmetries are generated by linear combinations of operators expressed in the Schwinger representation of U(2), called nullifiers because the Gaussian state in question is a zero eigenstate of them. This general framework is shown to have applications in the noise analysis of continuous-various cluster states and is expected to have additional applications in future work with large-scale multimode Gaussian states.Comment: v3: shorter, included additional applications, 11 pages, 7 figures. v2: minor content revisions, additional figures and explanation, 23 pages, 18 figures. v1: 22 pages, 16 figure