Youlian Pan

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Over the past few years, microRNAs (miRNAs) have emerged as a new prominent class of gene regulatory factors that negatively regulate expression of approximately one-third of the genes in animal genomes at post-transcriptional level. However, it is still unclear why some genes are regulated by miRNAs but others are not, i.e. what principles govern miRNA(More)
Various data mining techniques combined with sequence motif information in the promoter region of genes were applied to discover functional genes that are involved in the defense mechanism of systemic acquired resistance (SAR) in Arabidopsis thaliana. A series of K-Means clustering with difference-in-shape as distance measure was initially applied. A(More)
Gene ontology (GO) is organized in three principles, Cellular Component, Biological Process and Molecular Function. Analysis of GO annotations of a list of differentially expressed genes on microarrays became a common approach in helping with their biological interpretation. Earlier studies in GO analysis are based on a single principle, mostly Biological(More)
Permission is granted to quote short excerpts and to reproduce figures and tables from this report, provided that the source of such material is fully acknowledged. Identification of co-expressed genes sharing similar biological behaviors is an essential step in functional genomics. Traditional clustering techniques are generally based on overall similarity(More)
BACKGROUND Transcription factors regulate gene expression by interacting with their specific DNA binding sites. Some transcription factors, particularly those involved in transcription initiation, always bind close to transcription start sites (TSS). Others have no such preference and are functional on sites even tens of thousands of base pairs (bp) away(More)
An unsupervised multi-strategy approach has been developed to identify informative genes from high throughput genomic data. Several statistical methods have been used in the field to identify differentially expressed genes. Since different methods generate different lists of genes, it is very challenging to determine the most reliable gene list and the(More)
BACKGROUND Modern high throughput experimental techniques such as DNA microarrays often result in large lists of genes. Computational biology tools such as clustering are then used to group together genes based on their similarity in expression profiles. Genes in each group are probably functionally related. The functional relevance among the genes in each(More)
L'accès à ce site Web et l'utilisation de son contenu sont assujettis aux conditions présentées dans le site Access and use of this website and the material on it are subject to the Terms and Conditions set forth at Abstract. Recent advances in various forms of omics technologies have generated huge amount of data. To fully exploit these data sets that in(More)
Nowadays, it is possible to collect expression levels of a set of genes from a set of biological samples during a series of time points. Such data have three dimensions: gene-sample-time (GST). Thus they are called 3D microarray gene expression data. To take advantage of the 3D data collected, and to fully understand the biological knowledge hidden in the(More)