CCSfind: A tool for chemically informed LC-IM-MS database building

In addition to providing critical knowledge of the accurate mass of ions, ion mobility-mass spectrometry (IM-MS) delivers complementary data relating to the conformation and size of ions in the form of an ion mobility spectrum and derived parameters, namely, the ion's mobility (K) and the IM-derived collision cross section (CCS). However, the maximum amount of information obtained in IM-MS measurements is not currently transferred into analytical databases including the full mobility spectra (CCS distributions) as well as capturing of additional ion species (e.g., adducts) into the same compound entry. We introduce CCSfind, a new tool for building comprehensive databases from experimental IM-MS measurements of small molecules. CCSfind allows predicted ion species to be chosen for input chemical formulae, which are then targeted by CCSfind after parsing open source mzML input files to provide a unified set of results within a single data processing step. CCSfind can handle both chromatographically separated isomers and IM separation of isomeric ions (e.g., “protomers” or conformers of the same ion species) with simple user control over the output for new database entries in SQL format. Files of up to 1 GB can be processed in less than 2 min on a desktop computer with 32 GB RAM with computational time scaling linearly with the size of the input mzML file or the number of input molecular formulae. Results are manually reviewed, annotated with experimental settings, before committing the database where the full dataset can be retrieved.     

Interaction of iodine species with glycogen at high concentrations of iodine

Glycogen–iodine (GI) complex formation has been studied at different concentrations of iodine and glycogen. For each glycogen concentration (0.25, 0.125, 0.0625, 0.0313 g/L), the iodine concentration was varied from 0.0317 to 1.59 g/L and the absorbance readings were taken at 453 and 560 nm (GI wavelengths of maximum absorbance). The 453 nm absorbance curves for the GI solution (GI complex and unreacted iodine), and that of the pure iodine solution (without glycogen) level off at a high iodine concentration, and give a peak in the subtracted curve. The 560 nm curves consistently increase in absorbance, and no peak is noticed in the subtracted curve. The spectra of concentrated iodine solutions in water and alcohol suggest the formation of neutral iodine clusters. We suggest that these iodine clusters do not react with glycogen, and that the GI complex formation takes place by the addition of I₂ molecules. © 1997 John Wiley & Sons, Inc. J Polym Sci A: Polym Chem 35: 927–931, 1997     

Effect of density variation on the Sm A–I phase transition properties

Based on a thermodynamic model, we investigate how the density variation influences the smectic (Sm A)–isotropic (I) phase transition. We find that the density variation shifts the smectic A–isotropic transition temperature, however, first-order nature of the transition remains the same. Here, we also examine the effect of high pressure on the thermodynamic quantities. The present analysis shows that the pressure strongly influences the enthalpy and density step at the clearing transition. The pressure dependence of the thermodynamic properties is incorporated through the pressure dependent second Landau coefficient and the coefficients which couple the nematic and smectic order parameters to the density. We find a close agreement between theoretical and experimental results. Furthermore, we discuss the implications of the results for achiral liquid crystals.     

Structural,optical and electrical properties of sulfur-incorporated amorphous carbon films

Amorphous carbon–sulfur (a-C:S) composite films were prepared by vapor phase pyrolysis technique. The structural changes in the a-C:S films were investigated by electron microscopy. A powder X-ray diffraction (XRD) study depicts the two-phase nature of a sulfur-incorporated a-C system. The optical bandgap energy shows a decreasing trend with an increase in the sulfur content and preparation temperature. This infers a sulfur incorporation and pyrolysis temperature induced reduction in structural disorder or increase in sp ² or π-sites. The presence of sulfur (S 2p) in the a-C:S sample is analyzed by the X-ray photoelectron spectroscopy (XPS). The sp ³/sp ² hybridization ratio is determined by using the XPS C 1s peak fitting, and the results confirm an increase in sp ² hybrids with sulfur addition to a-C. The electrical resistivity variation in the films depends on both the sulfur concentration and the pyrolysis temperature.     

Preparation of Chitosan Based Scaffolds Using Supercritical Carbon Dioxide

A novel chitosan-formaldehyde porous derivative (scaffolds) was prepared by reaction of 85% deacetylated chitosan with 37% aq. formaldehyde using supercritical carbon dioxide (sc. CO₂). Prior to reaction, the chitosan hydrogel was prepared in 1% aq. acetic acid (AcOH) and formaldehyde. The prepared hydrogel was subjected to solvent exchange. The identity of the Schiff base was confirmed by Fourier transform infrared spectroscopy (FTIR). The chitosan-derivative was evaluated by thermal analysis, scanning electron microscopy, and porosimetry analysis. Overall, the sc. CO₂ assisted chitosan derivative opens new perspectives as biomedical material.     

DSC studies on the curing kinetics of chitosan–alanine using glutaraldehyde as crosslinker

The curing of chitosan–alanine with glutaraldehyde as curing agent in the presence of Chlorpheniramine Maleate (CPM) is carried out with the help of differential scanning calorimeter (DSC). The effect of concentration of chitosan and percentage of crosslinker on the curing is studied at a rate of 5 °C/min. Cure kinetics are measured from 30 to 200 °C at four different heating rates (3, 5, 7 and 10 °C/min). It is observed that the crosslinking of chitosan–alanine is an exothermic process which results in a positive peak in the curves. An increase in activation energy (E _α) is observed with extent of conversion.     

Indole-based distinctive chemosensors for ‘naked-eye’ detection of CN and HSO4−, associated with hydrogen-bonded complex and their DFT study

Colorimetric detection of anions (HSO₄^? and CN^?) was achieved via analyte triggered colour changing of the dipodal and tripodal sensors in CH₃CN–H₂O (1:1). The sensors exhibited very sharp visual colour changes and fluorescence quenching–enhancing effect upon addition of the HSO₄^? and CN^?. The large downfield shift of the NH proton signals in ¹H-NMR complexation studies and quantum chemical DFT calculations proved the formation of hydrogen-bonded complexes where no proton transfer mechanism was found.     

Proximity Approach to Study the Fusion Barriers for Proton and Helium Induced Reactions

By using various proximity potentials, the fusion barrier heights and positions are calculated for proton and helium induced reactions with targets in the mass range 51≤ A ≤130 and 12≤ A ≤233, respectively. The calculated fusion barriers are parameterized by using the relations RB^Par = aX1 ＋ b and VB^Par = cX2, where X1 and X2 are A2^1/3 and Z1Z2/RB^Par, respectively. The values of the constants a, b and c are different for different versions of proximity potentials. We find that the parameterized forms derived by using Proximity 1977 yield values closer to the empirical data in proton as well as helium induced reactions and can be used further to estimate directly the barrier parameters for the fusion reactions of proton and helium with any target.     

Ionic liquid catalyzed synthesis of 7-phenyl-1,4,6,7-tetrahydro-thiazolo[5,4-d]pyrimidine-2,5-diones

A simple, green and catalyst free one pot synthesis of 7-phenyl-1,4,6,7-tetrahydro-thiazolo[5,4-d]pyrimidine-2,5-diones via a multicomponent reaction between thiazolidine-2, 4-dione (TZD), aromatic aldehyde and urea analogues is described. The ionic liquid has been used as a solvent as well as catalyst for this reaction. This reaction proceeded smoothly in good to excellent yields and offered several other advantages including short reaction time, simple experimental workup procedure and no by-products.     

A Chemodosimetric Probe Based on a Conjugated Oxidized Bis‐Indolyl System for Selective Naked‐Eye Sensing of Cyanide Ions in Water

A new bis‐indolyl‐based colorimetric probe has been synthesized. This allows a Michael‐type adduct formation for the detection of cyanide ions. The probe shows a remarkable color change from red to colorless upon addition of the cyanide ions in pure water. The cyanide ion reacts with the probe and removes the conjugation of the bis‐indolyl moiety of the probe with that of the 4‐substituted aromatic ring. This renders the probe colorless. The mechanism of the reaction of the probe with the cyanide ion was established by using ¹H and ¹³C NMR spectroscopy, mass spectrometry, and kinetic studies.