A new flexible and efficient search technique has been recently introduced which includes two main components, a generalized profile syntax serving as motif definition language, and a motif search technique finding multiple instances of a motif in the same sequence. The gcneralized profile structure is presented in detail, as well as the tr/iynr?~cnf and SWYE notions which constitute the founda...

MOTIVATION Mass spectrometry-based protein profiling has become a key technology in biomedical research and biomarker discovery. Sample preparation strategies that reduce the complexity of tryptic digests by immunoaffinity substantially increase throughput and sensitivity in proteomic mass spectrometry. The scarce availability of peptide-specific capture antibodies limits these approaches. Rece...

Abstract: Exploring the features of network motifs as it provides different processing activities is significantly important. As network structure is applicable into different scientific and engineering fields, motifs (or significantly recurrent subgraphs) will clarify the different processing structures involved in the proposed organization. Herein, the indegree and outdegree of a motif are pr...

Although Leptospira interrogans is unable to utilize glucose as its carbon/energy source, the LA_1437 gene of L. interrogans serovar Lai potentially encodes a group III glucokinase (GLK). The L. interrogans GLK (LiGLK) heterogeneously expressed in Escherichia coli was purified and proved to be a homodimeric enzyme with its specific activity of 12.3 ± 0.6 U/mg x protein determined under an impro...

The LysR-family regulator MexT modulates the expression of the MexEF-OprN efflux system in the human pathogen Pseudomonas aeruginosa. Recently, we demonstrated that MexT regulates certain virulence phenotypes, including the type-three secretion system and early attachment independent of its role in regulating MexEF-OprN. In this study, transcriptome profiling was utilized to investigate the glo...

Venom based research is exploited to find novel candidates for the development of innovative pharmacological tools, drug candidates and new ingredients for cosmetic and agrochemical industries. Moreover, venomics, as a well-established approach in systems biology, helps to elucidate the genetic mechanisms of the production of such a great molecular biodiversity. Today the advances made in the p...

OF THE DISSERTATION Online Profiling and Feedback-directed Optimization of Java