Current Proteomics 

About: Current Proteomics is an academic journal published by Bentham Science Publishers. The journal publishes majorly in the area(s): Proteomics & Proteome. It has an ISSN identifier of 1570-1646. Over the lifetime, 442 publications have been published receiving 3704 citations.

Pseudo Amino Acid Composition and its Applications in Bioinformatics, Proteomics and System Biology

Abstract: With the avalanche of protein sequences generated in the post-genomic age, it is highly desired to develop automated methods for efficiently identifying various attributes of uncharacterized proteins. This is one of the most im- portant tasks facing us today in bioinformatics, and the information thus obtained will have important impacts on the de- velopment of proteomics and system biology. To realize that, one of the keys is to find an effective model to represent the sample of a protein. The most straightforward model in this regard is its entire amino acid sequence; however, the entire sequence model would fail to work when the query protein did not have significant homology to proteins of known char- acteristics. Thus, various non-sequential models or discrete models were proposed. The simplest discrete model is the amino acid (AA) composition. Using it to represent a protein, however, all the sequence-order information would be com- pletely lost. To cope with such a dilemma, the concept of pseudo amino acid (PseAA) composition was introduced. Its es- sence is to keep using a discrete model to represent a protein yet without completely losing its sequence-order informa- tion. Therefore, in a broad sense, the PseAA composition of a protein is actually a set of discrete numbers that is de- rived from its amino acid sequence and that is different from the classical AA composition and able to harbour some sort of sequence order or pattern information. Ever since the first PseAA composition was formulated to predict protein sub- cellular localization and membrane protein types, it has stimulated many different modes of PseAA composition for studying various kinds of problems in proteins and proteins-related systems. In this review, we shall give a brief and sys- tematic introduction of various modes of PseAA composition and their applications. Meanwhile, the challenges for find- ing the optimal PseAA composition are also briefly discussed.

Recent Advances in Controlled Immobilization of Proteins onto the Surface of the Solid Substrate and Its Possible Application to Proteomics

Abstract: Proteome analysis plays a key role in the elucidation of the functions and applications for numerous proteins. For proteome analyses, various microplate- and microarray-based techniques have been developed by a number of re- searchers. Their intent was to immobilize proteins on the surface of a solid substrate in a site-directed manner while re- taining structure and native biological function. In this review, we focus on recent advances in immobilization methodol- ogy for proteins/enzymes on a surface, including those using the affinity peptides screened by random peptide library sys- tems. We also discuss applications of the affinity peptide-mediated immobilization method in fields related to proteome analysis, particularly our recent work concerning immunoassay and protein-protein interaction analysis.

Application of Proteomics to Investigate Plant-Microbe Interactions

Abstract: With the completion of genome projects for Arabidopsis thaliana, Oryza sativa and several other plant species, an increasing number of whole genome sequences are now available for plants. In this post-genomic era, a more thorough understanding of gene expression and function can be achieved through the characterization of the products of expression, the proteins, which are essential biological determinants of plant phenotypes. Proteomics offers a continually evolving set of novel techniques to study all facets of protein structure and function. The application of proteomics in plant pathology is becoming more commonplace with techniques such as two-dimensional gel electrophoresis (2-DE) and mass spectrometry (MS) being used to characterize cellular and extracellular virulence and pathogenicity factors produced by pathogens as well as to identify changes in protein levels in plant hosts upon infection by pathogenic organisms and symbiotic counterparts. This review article summarizes the current status of geland non gel-based proteomic techniques and describes the significant discoveries that have resulted from the various proteome-level investigations into phytopathogenic microorganisms and plant host-microbe interactions.