6014802
Identifying the combination of genetic factors that determine susceptibility to cervical cancer
Cervical cancer is common among women all over the world. Although infection with high-risk types of human papillomavirus (HPV) has been identified as the primary cause of cervical cancer, only some of those infected go on to develop cervical cancer. Obviously, the progression from HPV infection to cancer involves other environmental and host factors. Recent population-based twin and family studies have demonstrated the importance of the hereditary component of cervical cancer, associated with genetic susceptibility. Consequently, single-nucleotide polymorphism (SNP) markers and microsatellites should be considered genetic factors for determining what combinations of genetic factors are involved in precancerous changes to cervical cancer. This study employs a Bayesian network and four different decision tree algorithms, and compares the performance of these learning algorithms. The results of this study raise the possibility of investigations that could identify combinations of genetic factors, such as SNPs and microsatellites, that influence the risk associated with common complex multifactorial diseases, such as cervical cancer. The web site associated with this study is http://140.115.155.8/FactorAnalysis/.
5048088
KinasePhos: a web tool for identifying protein kinase-specific phosphorylation sites
KinasePhos is a novel web server for computationally identifying catalytic kinase-specific phosphorylation sites. The known phosphorylation sites from public domain data sources are categorized by their annotated protein kinases. Based on the profile hidden Markov model, computational models are learned from the kinase-specific groups of the phosphorylation sites. After evaluating the learned models, the model with highest accuracy was selected from each kinase-specific group, for use in a web-based prediction tool for identifying protein phosphorylation sites. Therefore, this work developed a kinase-specific phosphorylation site prediction tool with both high sensitivity and specificity. The prediction tool is freely available at .
1841883
Mining putative regulatory elements in gene promoter regions of Saccharomyces cerevisiae
The availability of genome-wide gene expression data provides a unique set of genes from which we can decipher the mechanisms underlying the common transcriptional response. Transcription factors, which can bind to specific DNA sites, cooperatively regulate the transcription of genes. This study attempts to mine putative binding sites to investigate how combinations of the sites predicted from known sites and over-represented repetitive elements are distributed in the promoter regions of groups of functionally related genes. The over-represented repetitive elements appearing in the associations are possible transcription factor binding sites. The deduced association rules would facilitate to predict putative regulatory elements and to identify genes which are potentially co-regulated by the putative regulatory elements. Our proposed approach is applied to Saccharomyces cerevisiae and the promoter regions of yeast ORFs.
16432489
Genetic watermarking based on transform-domain techniques
Abstract An innovative watermarking scheme based on genetic algorithms (GA) in the transform domain is proposed. It is robust against watermarking attacks, which are commonly employed in the literature. In addition, the watermarked image quality is also considered. In this paper, we employ GA for optimizing both the fundamentally conflicting requirements. Watermarking with GA is easy for implementation. We also examine the effectiveness of our scheme by checking the fitness function in GA, which includes both factors related to robustness and invisibility. Simulation results also show both the robustness under attacks, and the improvement in watermarked image quality with GA.
17310261
Cross-cultural influences on women in the IT workforce
A review of 862 papers published in SIGMIS/CPR proceedings over the past 44 years revealed only 29 articles that focused on gender and the IT workforce or gender and IT education, the majority of which were presented at the 2003 conference whose theme was diversity in the IT workforce. Therefore, in response to the call for papers to extend our understanding of topics central to computer personnel research, we present data from our field study of gender and IT that is directed at understanding differing cross-cultural influences on female experiences in the IT workforce. Four themes emerged from analysis of data from four separate studies of women in the IT workforces in Australia, Ireland, New Zealand and the United States: motherhood and careers, career choice, family dynamics and gender stereotypes. Analysis of interviews with 167 women reveals a wide range of influences on women's choice of an IT career. These results lend empirical support to the individual differences theory of gender and IT as an alternative to essentialist or social construction theories.
7951451
A New Test System for Stability Measurement of Marker Gene Selection in DNA Microarray Data Analysis
Microarray gene expression data contains informative features that reflect the critical processes controlling prominent biological functions. Feature selection algorithms have been used in previous biomedical research to find the “marker” genes whose expression value change corresponds to the most eminent difference between specimen classes. One problem encountered in such analysis is the imbalance between very large numbers of genes versus relatively fewer specimen samples. A common concern, therefore, is “overfitting” the data and deriving a set of marker genes with low stability over the entire set of possible specimens. To address this problem, we propose a new test environment in which synthetic data is perturbed to simulate possible variations in gene expression values. The goal is for the generated data to have appropriate properties that match natural data, and that are appropriate for use in testing the sensitivity of feature selection algorithms and validating the robustness of selected marker genes. In this paper, we evaluate a statistically-based resampling approach and a Principal Components Analysis (PCA)-based linear noise distribution approach. Our results show that both methods generate reasonable synthetic data and that the signal/noise rate (with variation weights at 5%, 10%, 20% and 30%) measurably impacts the classification accuracy and the marker genes selected. Based on these results, we identify the most appropriate marker gene selection and classification techniques for each type and level of noise we modeled.
35266077
VQ-Based Gray Watermark Hiding Scheme and Genetic Index Assignment
A vector quantisation (VQ) based watermarking scheme for hiding the gray watermark is presented. It expands the watermark size, and employs VQ index assignment procedure with genetic algorithm, called genetic index assignment (GIA), for watermarking. The gray watermark is coded by VQ, and obtained indices are translated into a binary bitstream with a much smaller size. We partition the codebook into two sub-codebooks, and use either one of them based on the value of the bit for embedding. Next, GIA is employed to find better imperceptibility of watermarked image. Experimental results show that the proposed method possesses advantages over other related methods in literature.
15818599
Efficient Registration of 3D SPHARM Surfaces
We present SHREC, an efficient algorithm for registration of 3D SPHARM (spherical harmonic) surfaces. SHREC follows the iterative closest point (ICP) registration strategy, and alternately improves the surface correspondence and adjusts the object pose. It establishes the surface correspondence by aligning the underlying SPHARM parameterization. It employs a rotational property of the harmonic expansion to accelerate its step for parameterization rotation. It uses a hierarchical icosahedron approach to sample the rotation space and searches for the best parameterization that matches the template. Our experimental results show that SHREC can not only create more accurate registration than previous methods but also do it efficiently. SHREC is a simple, efficient and general registration method, and has a great potential to be used in many shape modeling and analysis applications.