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Recent demands for the production of biofuels from lignocellulose led to an increased interest in engineered cellulases from Trichoderma reesei or other fungal sources. While the methods to generate such mutant cellulases on DNA level are straightforward, there is often a bottleneck in their production since a correct posttranslational processing of these(More)
Olive (Olea europaea L.) is an important source of edible oil which was originated in Near-East region. In this study, two cDNA libraries were constructed from young olive leaves and immature olive fruits for generation of ESTs to discover the novel genes and search the function of unknown genes of olive. The randomly selected 3840 colonies were sequenced(More)
Current knowledge of resistance (R) genes and their use for genetic improvement in buffalograss (Buchloe dactyloides [Nutt.] Engelm.) lag behind most crop plants. This study was conducted to clone and characterize cDNA encoding R gene-like (RGL) sequences in buffalograss. This report is the first to clone and characterize of buffalograss RGLs. Degenerate(More)
DNA methylation is an important epigenetic phenomenon that plays a key role in the regulation of expression. Most of the studies on the topic of methylation's role in cancer mechanisms include analyses based on differential methylation, with the integration of expression information as supporting evidence. In the present study, we sought to identify(More)
A multiple sequence alignment (MSA) is a sequence alignment of three or more biological sequences. Main idea behind multiple sequence alignment is to see the similarities between input sequences, to be able to make phylogenetic analysis and other evolutionary conclusions. We propose a multiple sequence alignment method based on contact maps derived from(More)
With ongoing developments in technology, changes in DNA methylation levels have become prevalent to study cancer biology. Previous studies report that DNA methylation affects gene expression in a direct manner, most probably by blocking gene regulatory regions. In this study, we have studied the interplay between methylation and expression to improve our(More)
In order to understand the genetic basis of diseases, wetlab scientists conduct different kinds of experiments. Two such experiments are i. Genome wide association (GWA) studies that generate a list of Single Nucleotide Polymorphisms (SNPs) related with diseases; ii. Microarray experiments that generate a list of candidate genes associated with disease.(More)
The outcome of H. pylori infection is closely related with bacteria's virulence factors and host immune response. The association between T cells and H. pylori infection has been identified, but the effects of the nine major H. pylori specific virulence factors; cagA, vacA, oipA, babA, hpaA, napA, dupA, ureA, ureB on T cell response in H. pylori infected(More)
Motif extraction from protein sequences has been a challenging task for bioinformaticians. Class-specific motifs, which are frequently found in one class but are in small ratio in other classes can be used for highly accurate classification of protein sequences. In this study, we present a new scoring based method for class-specific n-gram motif selection(More)
It is important to extract the most relevant features of the genetic profiles to determine the health condition of the cellular structure. Early diagnosis of the illnesses has a great importance in the treatment. In this study, we analyzed a gene expression data by classifying using support vector machines after applying different feature extraction methods(More)