Structural classification of proteins through amino acid sequence using interval type-2 fuzzy logic system

This paper introduces a new multi-output interval type-2 fuzzy logic system (MOIT2FLS) that is automatically constructed from unsupervised data clustering method and trained using heuristic genetic algorithm for a protein secondary structure classification. Three structure classes are distinguished including helix, strand (sheet) and coil which correspond to three outputs of the MOIT2FLS. Quantitative properties of amino acids are used to characterize the twenty amino acids rather than the widely used computationally expensive binary encoding scheme. Amino acid sequences are parsed into learnable patterns using a local moving window strategy. Three clustering tasks are performed using the adaptive vector quantization method to derive an equal number of initial rules for each type of secondary structure. Genetic algorithm is applied to optimally adjust parameters of the MOIT2FLS with the purpose of maximizing the Q3 measure. Comprehensive experimental results demonstrate the strong superiority of the proposed approach over the traditional methods including Chou-Fasman method, Garnier-Osguthorpe-Robson method, and artificial neural network models.

Novel imidazolinium ionic liquids and organic salts

The preparation and physical properties of a novel family of ionic liquids and organic salts based on the imidazolinium cation are described, and compared with their imidazolium analogues in some cases. Ionic liquids were obtained with the triflate, formate and salicylate anions, while > 100 °C melting points were observed with acetate and several other benzoate derivatives. The triflate salt was less ion-conductive than the corresponding imidazolium salt, but less so than expected on the basis of its viscosity, suggesting a contribution from proton conductivity. The electrochemical window of the imidazolinium was slightly extended in the reductive direction, due to the lower proton activity produced by the cation in this case. Imidazolinium salts are also known to exhibit anti-corrosion properties and hence a preliminary study of this property is also reported; 2-methylimidazolinium 4-hydroxycinnamate was found to show strong anodic corrosion inhibition on mild steel.

Hydraulic performance of geosynthetic clay liners to sulfuric acid solutions

The ability of geosynthetic clay liners (GCLs) to contain acidic mining leachates is examined. The results of saturated hydraulic conductivity (k) of two GCLs permeated with sulfuric acid solutions (H2SO4) at 0.015M, 0.125M and 0.5M concentrations are reported. Also, the saturated k values of consolidated (35kPa) bentonite cakes made from sodium bentonite extracted from both GCLs were compared to a commonly used magnesium-sodium form bentonite. Chemical compatibility and effects of pre-hydration and effective stress were assessed as part of this study. Results indicated that an increased acid concentration (ionic strength) increased the k of all tested specimens. The ratio of the k0.5 values for non-prehydrated specimens permeated with 0.5M H2SO4 to the kw values for specimens permeated with deionized (DI) water (k0.5/kw) ranged from 10 to 110. Pre-hydration (50-140% water content) and increased effective stress (35-200kPa) improved the performance of GCLs (lower k). Strong correlations were observed between k and liquid limit and swell index parameters independent of pre-hydration and effective stress in this study. However, care should still be taken when using these correlations to evaluate hydraulic performance because the intrinsic micro-structure properties of bentonite, such as porosity, should also be considered. This work showed that, for example, high SI of bentonite does not translate necessarily to a better hydraulic performance of GCLs.