Numerical characterization of protein sequences based on the generalized Chou\u27s pseudo amino acid composition

The technique of comparison and analysis of biological sequences is playing an increasingly important role in the field of Computational Biology and Bioinformatics. One of the key steps in developing the technique is to identify an appropriate manner to represent a biological sequence. In this paper, on the basis of three physical-chemical properties of amino acids, a protein primary sequence is reduced into a six-letter sequence, and then a set of elements which reflect the global and local sequence-order information is extracted. Combining these elements with the frequencies of 20 native amino acids, a (21+λ) dimensional vector is constructed to characterize the protein sequence. The utility of the proposed approach is illustrated by phylogenetic analysis and identification of DNA-binding proteins

Localization and Mobility Gap in Topological Anderson Insulator

It has been proposed that disorder may lead to a new type of topological insulator, called topological Anderson insulator (TAI). Here we examine the physical origin of this phenomenon. We calculate the topological invariants and density of states of disordered model in a super-cell of 2-dimensional HgTe/CdTe quantum well. The topologically non-trivial phase is triggered by a band touching as the disorder strength increases. The TAI is protected by a mobility gap, in contrast to the band gap in conventional quantum spin Hall systems. The mobility gap in the TAI consists of a cluster of non-trivial subgaps separated by almost flat and localized bands.Comment: 8 pages, 7 figure

Toll-like receptors in cerebral ischemic inflammatory injury

Cerebral ischemia triggers acute inflammation, which has been associated with an increase in brain damage. The mechanisms that regulate the inflammatory response after cerebral ischemia are multifaceted. An important component of this response is the activation of the innate immune system. However, details of the role of the innate immune system within the complex array of mechanisms in cerebral ischemia remain unclear. There have been recent great strides in our understanding of the innate immune system, particularly in regard to the signaling mechanisms of Toll-like receptors (TLRs), whose primary role is the initial activation of immune cell responses. So far, few studies have examined the role of TLRs in cerebral ischemia. However, work with experimental models of ischemia suggests that TLRs are involved in the enhancement of cell damage following ischemia, and their absence is associated with lower infarct volumes. It may be possible that therapeutic targets could be designed to modulate activities of the innate immune system that would attenuate cerebral brain damage. Ischemic tolerance is a protective mechanism induced by a variety of preconditioning stimuli. Interpreting the molecular mechanism of ischemic tolerance will open investigative avenues into the treatment of cerebral ischemia. In this review, we discuss the critical role of TLRs in mediating cerebral ischemic injury. We also summarize evidence demonstrating that cerebral preconditioning downregulates pro-inflammatory TLR signaling, thus reducing the inflammation that exacerbates ischemic brain injury

Bis(2,2′-bipyridine-κ2 N,N′)(thio­cyanato-κN)copper(II) perchlorate

The asymmetric unit of title compound, [Cu(NCS)(C10H8N2)2]ClO4, contains a bis­(2,2′-bipyridine)(isothio­cyanato)copper(II) cation and a perchlorate anion. In the cation, the Cu2+ ion is coordinated by four N atoms from two bidentate 2,2′-bipyridine mol­ecules and an N atom from an isothio­cyanate anion, resulting in a distorted CuN5 pyramidal configuration. The crystal structure is stabilized by weak inter­molecular C—H⋯O and C—H⋯S hydrogen bonds, and weak π–π inter­actions between 2,2′-bipyridine rings [centroid–centroid distance = 3.908 (4) Å]. The perchlorate counteranion is disordered over two positions in a 0.66:0.34 ratio