MOTIVATION Several measures have been recently proposed for quantifying the functional similarity between gene products according to well-structured controlled vocabularies where biological terms are organized in a tree or in a directed acyclic graph (DAG) structure. However, existing semantic similarity measures ignore two important facts. First, when calculating the similarity between two ter...

1 The work was done when Xin-Jing Wang was an intern in Microsoft Research Asia. Now she is with IBM China Research Lab in Beijing and her contact email is [email protected]. ABSTRACT In this paper, we present a novel solution to the image annotation problem which annotates images using search and data mining technologies. An accurate keyword is required to initialize this process, and then l...

The ever-increasing scale of biological data sets, particularly those arising in the context of high-throughput technologies, requires the development of rich data exploration tools. In this article, we present AnnotCompute, an information discovery platform for repositories of functional genomics experiments such as ArrayExpress. Our system leverages semantic annotations of functional genomics...

MOTIVATION Microarray profiling of mRNA abundance is often ill suited for temporal-spatial analysis of gene expressions in multicellular organisms such as Drosophila. Recent progress in image-based genome-scale profiling of whole-body mRNA patterns via in situ hybridization (ISH) calls for development of accurate and automatic image analysis systems to facilitate efficient mining of complex tem...

As far as incidental vocabulary learning is concerned, the basic contention of the Involvement Load Hypothesis (ILH) is that retention of unfamiliar words is, generally, conditional upon the degree of involvement in processing them. This study examined input modality and incidental vocabulary uptake in a task-induced setting whereby three variously loaded task types (marginal glosses, fill-inta...

Political texts on the Web, documenting laws and policies and the process leading to them, are of key importance to government, industry, and every individual citizen. Yet access to such texts is difficult due to the ever increasing volume and complexity of the content, prompting the need for indexing or annotating them with a common controlled vocabulary or ontology. In this paper, we investig...

In this paper, we first introduce the notion of gloss for ontology engineering purposes. We propose that each vocabulary in an ontology should have a gloss. A gloss basically is an informal description of the meaning of a vocabulary that is supposed to render factual and critical knowledge to understanding a concept, but that is unreasonable or very difficult to formalize and/or articulate form...

This study explored the effect of using electronic dictionaries and hypermedia annotations on university students' receptive language skills, specifically reading comprehension and vocabulary acquisition. The subjects of the study consisted of 43 English major students who registered for the Reading One course at Taibah University in the second semester of the 2012-2013 academic year. The group...

The objective of this study was to investigate the effects of three different screen sizes (small, medium and large) and two types of multimedia instruction (text only and text with pictorial annotation) on vocabulary learning. One hundred thirty-five Korean middle school students learning English as a foreign language were randomly distributed into six groups and were given a pretest, a self-s...

MOTIVATION An increasing body of literature shows that genomes of eukaryotes can contain clusters of functionally related genes. Most approaches to identify gene clusters utilize microarray data or metabolic pathway databases to find groups of genes on chromosomes that are linked by common attributes. A generalized method that can find gene clusters regardless of the mechanism of origin would p...