581691
Carpenter: finding closed patterns in long biological datasets
The growth of bioinformatics has resulted in datasets with new characteristics. These datasets typically contain a large number of columns and a small number of rows. For example, many gene expression datasets may contain 10,000-100,000 columns but only 100-1000 rows.Such datasets pose a great challenge for existing (closed) frequent pattern discovery algorithms, since they have an exponential dependence on the average row length. In this paper, we describe a new algorithm called CARPENTER that is specially designed to handle datasets having a large number of attributes and relatively small number of rows. Several experiments on real bioinformatics datasets show that CARPENTER is orders of magnitude better than previous closed pattern mining algorithms like CLOSET and CHARM.
765245
CARE: Finding Local Linear Correlations in High Dimensional Data
Finding latent patterns in high dimensional data is an important research problem with numerous applications. Existing approaches can be summarized into 3 categories: feature selection, feature transformation (or feature projection) and projected clustering. Being widely used in many applications, these methods aim to capture global patterns and are typically performed in the full feature space. In many emerging biomedical applications, however, scientists are interested in the local latent patterns held by feature subsets, which may be invisible via any global transformation. In this paper, we investigate the problem of finding local linear correlations in high dimensional data. Our goal is to find the latent pattern structures that may exist only in some subspaces. We formalize this problem as finding strongly correlated feature subsets which are supported by a large portion of the data points. Due to the combinatorial nature of the problem and lack of monotonicity of the correlation measurement, it is prohibitively expensive to exhaustively explore the whole search space. In our algorithm, CARE, we utilize spectrum properties and effective heuristic to prune the search space. Extensive experimental results show that our approach is effective in finding local linear correlations that may not be identified by existing methods.
108674
Sample Selection for Maximal Diversity
The problem of selecting a sample subset sufficient to preserve diversity arises in many applications. One example is in the design of recombinant inbred lines (RIL) for genetic association studies. In this context, genetic diversity is measured by how many alleles are retained in the resulting inbred strains. RIL panels that are derived from more than two parental strains, such as the collaborative cross (Churchill et al., 2004), present a particular challenge with regard to which of the many existing lab mouse strains should be included in the initial breeding funnel in order to maximize allele retention. A similar problem occurs in the study of customer reviews when selecting a subset of products with a maximal diversity in reviews. Diversity in this case implies the presence of a set of products having both positive and negative ranks for each customer. In this paper, we demonstrate that selecting an optimal diversity subset is an NP-complete problem via reduction to set cover. This reduction is sufficiently tight that greedy approximations to the set cover problem directly apply to maximizing diversity. We then suggest a slightly modified subset selection problem in which an initial greedy diversity solution is used to effectively prune an exhaustive search for all diversity subsets bounded from below by a specified coverage threshold. Extensive experiments on real datasets are performed to demonstrate the effectiveness and efficiency of our approach.
9042204
CRD: fast co-clustering on large datasets utilizing sampling-based matrix decomposition
The problem of simultaneously clustering columns and rows (co-clustering) arises in important applications, such as text data mining, microarray analysis, and recommendation system analysis. Compared with the classical clustering algorithms, co-clustering algorithms have been shown to be more effective in discovering hidden clustering structures in the data matrix. The complexity of previous co-clustering algorithms is usually O(m X n), where m and n are the numbers of rows and columns in the data matrix respectively. This limits their applicability to data matrices involving a large number of columns and rows. Moreover, some huge datasets can not be entirely held in main memory during co-clustering which violates the assumption made by the previous algorithms. In this paper, we propose a general framework for fast co-clustering large datasets, CRD. By utilizing recently developed sampling-based matrix decomposition methods, CRD achieves an execution time linear in m and n. Also, CRD does not require the whole data matrix be in the main memory. We conducted extensive experiments on both real and synthetic data. Compared with previous co-clustering algorithms, CRD achieves competitive accuracy but with much less computational cost.
11841640
Accelerating Profile Queries in Elevation Maps
Elevation maps are a widely used spatial data representation in geographical information systems (GIS). Paths on elevation maps can be characterized by profiles, which describe relative elevation as a function of distance. In this research, we address the inverse of this mapping - given a profile, how to efficiently find paths that could have generated it. This is called the profile query problem. Profiles have a wide variety of uses that include registering tracking information, or even other maps, to a given map. We describe a probabilistic model to characterize the maximal likelihood that a point lying on a path matches the query profile. Propagation of such probabilities to neighboring points can effectively prune the search space. This model enables us to efficiently answer queries of arbitrary profiles with user-specified error tolerances. When compared to existing spatial index methods, our approach supports more flexible queries with orders of magnitude speedup.
2768791
Finding representative set from massive data
In the information age, data is pervasive. In some applications, data explosion is a significant phenomenon. The massive data volume poses challenges to both human users and computers. In this project, we propose a new model for identifying representative set from a large database. A representative set is a special subset of the original dataset, which has three main characteristics: It is significantly smaller in size compared to the original dataset. It captures the most information from the original dataset compared to other subsets of the same size. It has low redundancy among the representatives it contains. We use information-theoretic measures such as mutual information and relative entropy to measure the representativeness of the representative set. We first design a greedy algorithm and then present a heuristic algorithm that delivers much better performance. We run experiments on two real datasets and evaluate the effectiveness of our representative set in terms of coverage and accuracy. The experiments show that our representative set attains expected characteristics and captures information more efficiently.
15720571
An adaptive rate control algorithm for video coding over personal digital assistants (PDA)
With the recent development of third-generation communication technologies, encoding live video using a PDA and sharing it among friends has become a reality. However, the embedded processor inside a PDA is still not powerful enough and there are two major hurdles to overcome: (1) video coding needs to meet the rigorous constraint of the available computation capacity of a PDA; (2) In a PDA the computing power allocated to video coding may vary drastically (in bursts). In this paper, a new adaptive rate control algorithm is proposed for video coding over a PDA. This adaptive rate control scheme takes into account the time constraint of a PDA, and its bit allocation depends not only on the available data bits, but more importantly, on the available coding time. Experimental results show that, compared to the existing rate control scheme, the new algorithm can always achieve the maximum frame rate, maximize the utilization of the available bandwidth and computing power, increase the average PSNR, and improve the subjective perceptual quality of the reconstructed video.
30558034
A scalable fast mode decision algorithm for H.264
This paper presents a scalable fast mode decision algorithm to effectively choose the best coding mode among the 7 macroblock (MB) coding modes that could be used in H.264 video coding. The spatial and temporal complexity of the MB is analyzed to determine the order of searching in the mode decision priority queue such that the most probable mode is checked first, followed by the second most probable mode, and so on. This process is terminated as soon as the computed rate-distortion (RD) cost is below a threshold which is dependent on the complexity ratio of the current MB. By adjusting the threshold we can choose a preferred tradeoff between timesaving and quality compromise. Experimental results show that the proposed fast mode decision algorithm can drastically reduce the encoding time up to 50% with negligible loss of coding efficiency
16312564
A new hybrid model for time-series prediction
This paper proposed a new hybrid model in order to increase time series prediction accuracy. This hybrid model considers the routine time prediction technique like AR, ANN or any others as atomic building block. A linear hybrid technique is used to combine their forecast result into the final result. The hybrid algorithm was tested against three different kinds of time series data. Experiments results showed the effectiveness of the proposed hybrid model.
23103906
Modeling of Fermentation Process Based on QDPSO-SVM
Utilizing the ability simple in application and quick in convergence of quantum delta-potential-well-based particle swarm optimization (QDPSO) algorithm and the high generalization ability of support vector machine (SVM), selecting the appropriate state variables, a dynamic time-varying model has been built. Using the model and algorithm to per-estimate some biochemical state variables which can not be measured on-line, and to optimise some operational variables. It is proved that the method is efficiency through the practical application of penicillin fermentation process.
9260921
Complexity adaptive quantization for intra-frames in very low bit rate video coding
Conventional rate control schemes focus on the problem of finding an optimal quantization value for P- and B-frames. No rate control is available for the encoding of I-frames. This could pose big problems due to the large number of bits an I-frame could generate, and due to the fact that the number of bits varies drastically from sequence to sequence, depending on their image complexity. This problem becomes severe especially at very low bit rate. Therefore, a mechanism to allocate data bits to an I-frame according to its complexity is indispensable in order to have constant coding quality. This work presents a mechanism to establish for I-frames a generic relationship between the quantization value, data bits, and their image complexity. Experimental results show that this generic relationship provides a fairly accurate estimation of quantization value for an I-frame at given data bits and image complexity, and is very useful in controlling the data bits generated by an I-frame.