Protein aggregation is phenomenon wherein protein loses its native structure and aggregates due to the adaption of non-native conformation. Amyloid aggregation formed by the accumulation of various proteins causes many diseases in humans and other organisms. Antioxidants can prevent proteins aggregation. Pulicaria undulata  extract along with phenolic compounds can increase protein stability an...

human serum albumin (hsa) is an abundant, multifunctional and nonglycosylated negatively charged plasma protein. hsa ascribed ligand-binding and transport properties, antioxidant functions and enzymatic activities. in the present study, the interaction and side effects of a new designed anti-cancer compound (1,10-phenanthroline butyl dithiocarbamato palladium(ii) nitrate) on hsa have been inves...

Degree/ connectivity (k) k A =Nb of edges through A=5 B 4 =Fraction of SPs passing through A =0.090 Assortativity/average nearest neighbor's connectivity (NC) Shortest path (SP) between two nodes Betweenness/ centrality (B) Clustering coefficient/ interconnectivity (C) C A = Actual links between A's neighbors (black) Possible links between A's neighbors (orange) A D-Degrees follow Poisson (or p...

Recent techniques increase the amount of our knowledge of interactions between proteins. To filter, interpret and organize this data, many authors have provided tools for querying patterns in the shape of paths or trees in Protein-Protein Interaction networks. In this paper, we propose an exact algorithm for querying graphs pattern based on dynamic programming and color-coding. We provide an im...

       The binding of drugs by plasma proteins is an important phenomenon, because it influences the size of the free fraction of the drugs in plasma. In this study the influence of dipyridamole (DP) on the protein binding of propranolol (PL) and PL on the protein binding of DP were studied alone and in the presence of nicotine (NC).        The equilibrium dialysis was employed for protein bin...

the interaction between holo-transferin (htf) and colchicine (col) was investigated in the present of pb +2 ions under physiological conditions by using synchronous fluorescence spectra. the synchronous fluorescence spectra show a slight change of tryptophan residue micro-environment. synchronous fluorescence spectra show that the structure of the tyrosine residue environment was altered by int...

All living organisms consist of living cells and share basic cellular mechanisms. Amazingly, all those cells, whether from a bacterium or a human being, although different in their structure and complexity, comprise the same building blocks of macro molecules: DNA, RNA, and proteins. Proteins play major roles in all cellular processes: they create signaling cascades, regulate almost every proce...

Proteins are some of the building blocks of organisms. They usually perform their functions by interacting with each other and forming protein complexes. A protein-protein interaction network is a graph that consists of proteins as vertices and their interactions as edges. Protein-protein interaction network alignment is very important in identifying protein complexes and predicting protein fun...

Protein-protein interactions (PPI) are very important to the understanding of metabolic pathway. Many digital publications are available today; some of them discuss PPI and some of them do not. If machine learning techniques can be used to detect those PPI documents automatically, it would save researchers tremendous amount of time to construct a biological pathway. In this study, we analyze th...

This report summarizes the participation of the Tsujii-lab group in the 2006 BioCreative2 text mining challenge. It describes the systems used, the results attained, and the lessons learned. The basic idea was to see how well the AKANE system could perform on a full-text ProteinProtein Interaction (PPI) Information Extraction (IE) task. AKANE system is a recently developed, sentence-level PPI s...