Linear regression model of DNA sequences and its application

We constructed six new models to analyze the DNA sequences. First, we regarded a DNA primary sequence as a random process in t and gave three ways to define nucleotides' random distribution functions. We extracted some parameters from the linear model and analyzed the changes of the nucleotides' distributions. In order to facilitate the comparison of DNA sequences, we proposed two ways to measure their similarities. Finally, we compared the six models by analyzing the similarities of the DNA primary sequences presented in Table 1 and selected the optimal one.     

A2B2-type push-pull porphyrins as reverse saturable and saturable absorbers

A(2)B(2)-type push-pull porphyrins with a strong intramolecular dipole moment have been prepared via Heck and Suzuki coupling reactions as novel materials for use in nonlinear optics (NLO); they display saturable (SA) and reverse saturable absorption (RSA) properties at 532 nm and their nonlinear optical response is characterized by RSA occurring at lower intensity levels whereas the onset of SA prevails at higher levels.     

Amidine- and Amidoxime-Substituted Heterocycles: Synthesis,Antiproliferative Evaluations and DNA Binding

The novel 1,2,3-triazolyl-appended N- and O-heterocycles containing amidine 4–11 and amidoxime 12–22 moiety were prepared and evaluated for their antiproliferative activities in vitro. Among the series of amidine-substituted heterocycles, aromatic diamidine 5 and coumarine amidine 11 had the most potent growth-inhibitory effect on cervical carcinoma (HeLa), hepatocellular carcinoma (HepG2) and colorectal adenocarcinoma (SW620), with IC₅₀ values in the nM range. Although compound 5 was toxic to non-tumor HFF cells, compound 11 showed certain selectivity. From the amidoxime series, quinoline amidoximes 18 and 20 showed antiproliferative effects on lung adenocarcinoma (A549), HeLa and SW620 cells emphasizing compound 20 that exhibited no cytostatic effect on normal HFF fibroblasts. Results of CD titrations and thermal melting experiments indicated that compounds 5 and 10 most likely bind inside the minor groove of AT-DNA and intercalate into AU-RNA. Compounds 6, 9 and 11 bind to AT-DNA with mixed binding mode, most probably minor groove binding accompanied with aggregate binding along the DNA backbone.     

Self-Assembly of Two Isomorphous Thiocyanate Complexes of Co(II) and Ni(II) with 3-Hydroxypicolinamide

Abstract  

The synthesis, thermal and spectral characterization, and crystal structure of isomorphous thiocyanate cobalt(II) and nickel(II) complexes with 3-hydroxypicolinamide (3-OHpia), [M(C₆H₆N₂O₂)₂(NCS)₂]·2H₂O, are reported. The metal(II) ions are chelated by two cis-oriented 3-OHpia and two thiocyanate ligands in distorted octahedral geometry. The distortion within the coordination sphere is mainly imposed by formation of the chelate rings. The compounds crystallize in monoclinic space group P2/c with two symmetrically independent molecules and a = 14.4945(2) ?, b = 8.5906(1) ?, c = 16.3865(3) ?, β = 105.987(2)°, Z = 4 (1) and a = 14.4927(5) ?, b = 8.5912(3) ?, c = 16.2712(6) ?, β = 105.740(4)°, Z = 4 (2). Commonly observed supramolecular amide synthons are not robust enough to accommodate thiocyanate ions and H₂O molecules. But instead, neutral complexes are linked through hydrogen bonds leading to two different hydrogen bonding ribbon motifs involving amide moieties and H₂O molecules [C(8)R ₂²(12) along c axis] and amide moieties and thiocyanate ions [C(8)R ₂²(16) along b axis] for symmetrically related molecules labelled as 1 [Co1 (1) and Ni1 (2)] and 2 [Co2 (1) and Ni2 (2)], respectively.     

Gold chloride cluster ions generated by vacuum laser ablation

In this work, a simple way for study the possibility of formation a vapor cluster species of tetrachloroauric acid (HAuCl₄), using the laser ablation in the absence of a buffer or reactive atmosphere, and without a postablation supersonic expansion on a commercial matrix assisted laser desorption/ionization time-of-flight mass spectrometer, is reported. Tetrachloroauric acid is known as precursor for the synthesis of gold nanostructures and the complex salts; therefore it is an important task to discover and quantify the species arising from HAuCl₄, in order to understand their role in the gold assisted reactions. Mass spectrum of HAuCl₄ in a reflector negative-ion mode contains the hydrated mono- and dinuclear gold clusters in the m/z range 286–436, and gold chloride clusters in the m/z range 447–795. In the first part of spectrum, m/z range 286–436, the hydrated gold cluster species of type Au _n ^? (H₂O)_m (n?=?1–2; m?=?1, 2, 5, 7, 8) and [Au_n(OH)_k]^?(H₂O)_m (n?=?1–2; k?=?1–2; m?=?1, 4–8) were found. Besides that, there are gold chloride clusters with general formula [AuH_r(HCl)₂]^?(H₂O)_m (m?=?1–5; 8–9; r?=?0–2) in this part of spectrum. In the second part of spectrum, the m/z range 447–795, only gold chloride clusters were obtained. Their general formulae can be written as [AuCl_t(HCl)_v]^?(H₂O)_m (t?=?1–4; v?=?5–8; m?=?2–4, 6–8) and [Au_n(HCl)_v]^?(H₂O)_m (n?=?1–2, v?=?4–5, m?=?1–2, 5, 7). The analysis of concentration effects on the LDI mass spectra of gold clusters reveals that the relative intensities of signals for the mono- and dinuclear Au clusters increase with decreasing the concentration of water HAuCl₄ solutions.     

Interactions of multicationic bis(guanidiniocarbonylpyrrole) receptors with double-stranded nucleic acids: syntheses, binding studies, and atomic force microscopy imaging

Compounds 1-3, composed of two guanidiniocarbonylpyrrole moieties linked by oligoamide bridges and differing in number and type of basic groups, were prepared. The sites and degree of protonation of 1-3 depend strongly on the pH value. The interactions of these compounds with several double-stranded (ds) DNA and dsRNA were investigated by means of UV/Vis and CD spectroscopy as well as isothermal titration microcalorimetry (ITC). These studies revealed that the binding of 1-3 to the polynucleotides is driven by three factors, the presence of aliphatic amino groups, the protonation state of the compounds, and the steric properties of the polynucleotide binding site, that is, the shape and structure of their grooves. The results obtained by all applied methods consistently indicated that receptors 1-3 bind to the minor groove of DNA, but, by contrast, to the major groove of RNA. Additionally, it was shown by atomic force microscopy (AFM) imaging that upon interaction of compound 2 with calf thymus (ct) DNA induced aggregation of the DNA occurs, leading to pronounced changes in its secondary structure.     

Validation of an in-house measurement procedure for determination of selected priority hazardous substances in water and estimation of measurement uncertainty

Accreditation and Quality Assurance - This study investigates measurement procedure validation for the determination of hexachlorobenzene, pentachlorobenzene and trifluralin as priority hazardous...     

Normal- and Reversed-Phase Behaviour of 16,17-Secoestrone Derivatives on Cyanopropyl-Bonded Silica Gel

The retention behaviour of a number of 16,17-secoestrone derivatives has been studied by LC and HPTLC on a polar cyanopropyl-bonded stationary phase using non-aqueous and aqueous-organic mobile phases. The retention behaviour has been discussed in terms of nature of the solute, eluent and stationary phase. The correlation between retention constants of 16,17-secoestrone derivatives obtained from reversed-phases and commercially available ACD log P software (Advanced Chemistry, Toronto, Canada) has also been examined.