The structure of p-chlorophenol and barrier to internal OH rotation in the S1-state

The structure and barrier to internal rotation of 4-chlorophenol in the ground state and the electronically excited S₁-state has been examined by rotationally resolved laser induced fluorescence spectroscopy of 4-³⁵Cl-phenol, 4-³⁷Cl-phenol, 4-³⁵Cl-phenol-d₁, and 4-³⁷Cl-phenol-d₁. The overlapping spectra have been assigned simultaneously using a genetic algorithm approach. The rotationally resolved spectrum of the electronic origin of 4-chlorophenol is comprised of two subbands, which are split by 60 MHz due to the internal rotation of the hydroxy group. The torsional barrier in the electronically excited state could be estimated to be 1400 cm⁻¹, only about 250 cm⁻¹ higher than in the ground state. The CCl bond lengths decreases by approximately 6 pm upon electronic excitation and the aromatic ring is distorted quinoidally.     

Extension of High‐Resolution Optical Absorption Spectroscopy to Divalent Neodymium: Absorption Spectra of Nd2+ Ions in a SrCl2 Host

There is a lack of information on electronic spectra of divalent neodymium, and thus the synthesis and characterization of Nd²⁺ systems is now reported. Stabilization of neodymium is observed in a chloride host, which importantly has been accomplished with Nd ions introduced in a divalent state during synthesis, unlike by γ‐irradiation of Nd³⁺ system employed previously. This method yields good‐quality SrCl₂:Nd²⁺ single crystals. For the first time the electronic absorption spectra of Nd²⁺ doped in SrCl₂ have been recorded with high resolution at liquid helium temperature (4.2 K). Identification of the absorption bands occurring in the spectral range of 5000–40 000 cm⁻¹ (2000–250 nm) has been achieved and their tentative assignment proposed. This uniquely detailed Nd²⁺ absorption spectrum provides basis for fingerprinting method enabling identification of the presence of Nd²⁺ ions in future spectra as well as in existing but as‐yet not fully resolved spectra.     

Structure determination of resorcinol rotamers by high-resolution UV spectroscopy.

The rotationally resolved S1<--S0 electronic origins of several deuterated resorcinol rotamers cooled in a molecular beam have been recorded. An automated assignment of the observed spectra has been performed using a genetic algorithm approach with an asymmetric rotor Hamiltonian. The structures of resorcinol A and resorcinol B were derived from the rotational constants of twenty deuterated species for both electronic states. The lifetimes of different resorcinol isotopomers in the S1 state are also reported. As is the case for phenol, these lifetimes mainly depend on the position of deuteration. A nearly perfect additivity of the zero-point energies after successive deuterations in resorcinol rotamers has been discovered and subsequently used in the full assignment of the previously reported low-resolution spectra of deuterated resorcinol A. An analogous spectrum is also predicted for the resorcinol B rotamer.     

Time-resolved biomarker discovery in 1H-NMR data using generalized fuzzy Hough transform alignment and parallel factor analysis

This work addresses the subject of time-series analysis of comprehensive ¹H-NMR data of biological origin. One of the problems with toxicological and efficacy studies is the confounding of correlation between the administered drug, its metabolites and the systemic changes in molecular dynamics, i.e., the flux of drug-related molecules correlates with the molecules of system regulation. This correlation poses a problem for biomarker mining since this confounding must be untangled in order to separate true biomarker molecules from dose-related molecules. One way of achieving this goal is to perform pharmacokinetic analysis. The difference in pharmacokinetic time profiles of different molecules can aid in the elucidation of the origin of the dynamics, this can even be achieved regardless of whether the identity of the molecule is known or not. This mode of analysis is the basis for metabonomic studies of toxicology and efficacy. One major problem concerning the analysis of ¹H-NMR data generated from metabonomic studies is that of the peak positional variation and of peak overlap. These phenomena induce variance in the data, obscuring the true information content and are hence unwanted but hard to avoid. Here, we show that by using the generalized fuzzy Hough transform spectral alignment, variable selection, and parallel factor analysis, we can solve both the alignment and the confounding problem stated above. Using the outlined method, several different temporal concentration profiles can be resolved and the majority of the studied molecules and their respective fluxes can be attributed to these resolved kinetic profiles. The resolved time profiles hereby simplifies finding true biomarkers and bio-patterns for early detection of biological conditions as well as providing more detailed information about the studied biological system. The presented method represents a significant step forward in time-series analysis of biological ¹H-NMR data as it provides almost full automation of the whole data analysis process and is able to analyze over 800 unique features per sample. The method is demonstrated using a ¹H-NMR rat urine dataset from a toxicology study and is compared with a classical approach: COW alignment followed by bucketing.     

基于导数光谱融合建模的红外光谱定量分析方法

设计了基于奇摄动技术的导数光谱估计器并提出基于不同阶次导数光谱空间的融合建模定量分析方法。方法充分利用导数光谱信息空间、区间最小二乘法和融合建模的优点,挖掘光谱深层次信息进行融合建模。分别利用麦汁浓度范围4.23~18.76° P (柏拉图度)的啤酒红外光谱公共数据集和配制的浓度为0.04%~5%范围的葡萄糖溶液实测光谱数据集进行定量分析方法的对比实验。实验结果表明,融合建模定量分析方法能获得最小的预测均方根误差(RMSEP),其值分别为0.121和0.087,能够准确地进行定量分析。与其它建模方法相比较,基于导数光谱的融合建模方法所建立的预测模型具有明显优越的性能。     

Preclassification of Broadband and Sparse Infrared Data by Multiplicative Signal Correction Approach

Preclassification of raw infrared spectra has often been neglected in scientific literature. Separating spectra of low spectral quality, due to low signal-to-noise ratio, presence of artifacts, and low analyte presence, is crucial for accurate model development. Furthermore, it is very important for sparse data, where it becomes challenging to visually inspect spectra of different natures. Hence, a preclassification approach to separate infrared spectra for sparse data is needed. In this study, we propose a preclassification approach based on Multiplicative Signal Correction (MSC). The MSC approach was applied on human and the bovine knee cartilage broadband Fourier Transform Infrared (FTIR) spectra and on a sparse data subset comprising of only seven wavelengths. The goal of the preclassification was to separate spectra with analyte-rich signals (i.e., cartilage) from spectra with analyte-poor (and high-matrix) signals (i.e., water). The human datasets 1 and 2 contained 814 and 815 spectra, while the bovine dataset contained 396 spectra. A pure water spectrum was used as a reference spectrum in the MSC approach. A threshold for the root mean square error (RMSE) was used to separate cartilage from water spectra for broadband and the sparse spectral data. Additionally, standard noise-to-ratio and principle component analysis were applied on broadband spectra. The fully automated MSC preclassification approach, using water as reference spectrum, performed as well as the manual visual inspection. Moreover, it enabled not only separation of cartilage from water spectra in broadband spectral datasets, but also in sparse datasets where manual visual inspection cannot be applied.     

Relationship between the Dynamic Properties of 1h Ice and Xenon Hydrate and the Interplay of Intramolecular and Intermolecular Vibrations

A new approach was used to simulate vibration spectra of 1h ice and xenon hydrate in the range 0–4000 cm^-1, which encompasses both intramolecular and intermolecular vibrations. This approach, based on the lattice dynamics method, enables full spectra to be obtained for molecular crystals with allowance for the coupling of intramolecular and lattice vibrations. It is shown that consideration of this coupling leads to splitting of the peaks of intramolecular vibrations and to a significant change in the spectrum in the range of translation and libration molecular vibrations, which agrees qualitatively with experimental results.     

Micro-Raman Characterization of Structural Features of High-k Stack Layer of SOI Nanowire Chip,Designed to Detect Circular RNA Associated with the Development of Glioma

The application of micro-Raman spectroscopy was used for characterization of structural features of the high-k stack (h-k) layer of “silicon-on-insulator” (SOI) nanowire (NW) chip (h-k-SOI-NW chip), including Al₂O₃ and HfO₂ in various combinations after heat treatment from 425 to 1000 °C. After that, the NW structures h-k-SOI-NW chip was created using gas plasma etching optical lithography. The stability of the signals from the monocrine phase of HfO₂ was shown. Significant differences were found in the elastic stresses of the silicon layers for very thick (>200 nm) Al₂O₃ layers. In the UV spectra of SOI layers of a silicon substrate with HfO₂, shoulders in the Raman spectrum were observed at 480–490 cm⁻¹ of single-phonon scattering. The h-k-SOI-NW chip created in this way has been used for the detection of DNA-oligonucleotide sequences (oDNA), that became a synthetic analog of circular RNA–circ-SHKBP1 associated with the development of glioma at a concentration of 1.1 × 10⁻¹⁶ M. The possibility of using such h-k-SOI NW chips for the detection of circ-SHKBP1 in blood plasma of patients diagnosed with neoplasm of uncertain nature of the brain and central nervous system was shown.     

Direct structural identification of polysaccharides from red algae by FTIR microspectrometry II: Identification of the constituents ofGracilaria verrucosa

The use of the infrared microspectrometry analytical technique as a new tool for the identification of the polysaccharides contained in the red algaeGracilaria verrucosa has demonstrated that in addition to agar spectra, features of the other coexisting constituents can also be obtained. Indeed, the infrared spectra recorded previously, all exhibit two important bands at about 1645 and 1530cm^–1. These two bands were not present in the infrared spectra of the extracted agars and they are expected to be due to the amide I and amide II protein vibrations. In order to confirm this supposition, we have applied some enzymatic treatments, firstly on the whole algae and secondly on the ground algae (the algae has been previously depigmented and then dehydrated). Agarase, xylanase and cellulase were successively carried out on the algae. The last resulting spectrum, i.e. the spectrum obtained from the fraction which has undergone the three treatments, has been identified to be characteristic of proteins. This spectrum contained, both the amide I and II vibrations and in addition, weak absorption at 1230 cm^–1 due probably to the amide III, was observed. Additional weak bands in the 1400–1300 cm^–1 due to the different skeletal modes of the proteins were also present in this spectrum.The infrared spectra also revealed that the use of the enzymatic treatments on the ground algae is more efficient than when it is carried out on the whole algae.     

Spectra and Structure of Silicon-Containing Compounds. XXVIII1 Infrared and Raman Spectra,Vibrational Assignment,and Ab Initio Calculations of Vibrational Spectrum and Structural Parameters of Vinyltrichlorosilane

The infrared spectra (3200-50 cm^–1) of gaseous and solid vinyltrichlorosilane, CH₂=CH-SiCl₃, have been recorded. In addition, the Raman spectrum (3200-10 cm^–1) of the liquid has been recorded and quantitative depolarization values obtained. The infrared spectrum of the sample dissolved in liquid xenon (–80°C) has also been recorded. Using the experimental data and normal coordinate calculations with scaled ab initio force constants, the complete vibrational assignment is proposed. The torsional mode was observed in the infrared spectrum of the gas at 69 cm^–1 and the threefold barrier of internal rotation was calculated to be 500 cm^–1 (5.98 kJ/mol). Ab initio calculations have been carried out at the restricted Hartree–Fock level of the theory as well as with full electron correlation by the perturbation method to second order with different basis sets up to 6-311+G(d,p) to obtain the optimized geometries, harmonic force constants, infrared intensities, Raman activities, depolarization ratios, and vibrational frequencies. The ab initio predicted structural parameters are compared with those obtained from a previous electron diffraction study.     

Anharmonicity and Spectra–Structure Correlations in MIR and NIR Spectra of Crystalline Menadione (Vitamin K3)

Mid-infrared (MIR) and near-infrared (NIR) spectra of crystalline menadione (vitamin K₃) were measured and analyzed with aid of quantum chemical calculations. The calculations were carried out using the harmonic approach for the periodic model of crystal lattice and the anharmonic DVPT2 calculations applied for the single molecule model. The theoretical spectra accurately reconstructed the experimental ones permitting for reliable assignment of the MIR and NIR bands. For the first time, a detailed analysis of the NIR spectrum of a molecular system based on a naphthoquinone moiety was performed to elucidate the relationship between the chemical structure of menadione and the origin of the overtones and combination bands. In addition, the importance of these bands during interpretation of the MIR spectrum was demonstrated. The overtones and combination bands contribute to 46.4% of the total intensity of menadione in the range of 3600–2600 cm⁻¹. Evidently, these bands play a key role in shaping of the C-H stretching region of MIR spectrum. We have shown also that the spectral regions without fundamentals may provide valuable structural information. For example, the theoretical calculations reliably reconstructed numerous overtones and combination bands in the 4000–3600 and 2800–1800 cm⁻¹ ranges. These results, provide a comprehensive origin of the fundamentals, overtones and combination bands in the NIR and MIR spectra of menadione, and the relationship of these spectral features with the molecular structure.     

Observation and analysis of rotationally resolved — electronic transitions of CD—Ar

The CD—Ar van der Waals complex has been generated in the gas phase by the 248 nm photolysis of CDBr₃ entrained in a supersonic jet of argon. Rotationally resolved spectra associated with the complex have been observed by laser-induced fluorescence in the vicinity of the CD B ²Σ⁻-X ²Π (1, 0) band near 366 nm. Bands at 27310.7 and 27327.8 cm⁻¹ are rotationally analyzed using computer simulations, and assigned as (1, 0⁰, 0) and (1, 1^p, 0), respectively. The vibronic structure of the CD—Ar excited states has also been analyzed using a model based on hindered internal rotation. The results are compared to those reported for CH—Ar.     

Study of near‐symmetric cyclodextrins by compressed sensing 2D NMR

The compressed sensing NMR (CS‐NMR) is an approach to processing of nonuniformly sampled NMR data. Its idea is to introduce minimal l_p‐norm (0 < p ≤ 1) constraint to a penalty function used in a reconstruction algorithm. Here, we demonstrate that 2D CS‐NMR spectra allow the full spectral assignment of near‐symmetric β‐cyclodextrin derivatives (mono‐modified at the C6 position). The application of CS‐NMR ensures experimental time saving and the resolution improvement, necessary because of very low chemical shift dispersion. In the overnight experimental time, the set of properly resolved 2D NMR spectra required for the unambiguous assignment of mono(6‐deoxy‐6‐(1‐1,2,3‐triazo‐4‐yl)‐1‐propane‐3‐O‐(phenyl)) β‐cyclodextrin was obtained. The highly resolved HSQC spectrum was reconstructed from 5.12% of the data. Moreover, reconstructed 2D HSQC–TOCSY spectrum yielded information about the correlations within one sugar unit, and 2D HSQC–NOESY technique allowed the sequential assignment of the glucosidic units. Copyright © 2013 John Wiley & Sons, Ltd.     

Strategy for the elucidation of elemental compositions of trace analytes based on a mass resolution of 100 000 full width at half maximum

Elemental compositions (ECs) can be elucidated by evaluating the high‐resolution mass spectra of unknown or suspected unfragmented analyte ions. Classical approaches utilize the exact mass of the monoisotopic peak (M + 0) and the relative abundance of isotope peaks (M + 1 and M + 2). The availability of high‐resolution instruments like the Orbitrap currently permits mass resolutions up to 100 000 full width at half maximum. This not only allows the determination of relative isotopic abundances (RIAs), but also the extraction of other diagnostic information from the spectra, such as fully resolved signals originating from ³⁴S isotopes and fully or partially resolved signals related to ¹⁵N isotopes (isotopic fine structure). Fully and partially resolved peaks can be evaluated by visual inspection of the measured peak profiles. This approach is shown to be capable of correctly discarding many of the EC candidates which were proposed by commercial EC calculating algorithms. Using this intuitive strategy significantly extends the upper mass range for the successful elucidation of ECs. Copyright © 2010 John Wiley & Sons, Ltd.     

Measurements of differential cross sections for vibrational quantum transitions in scattering of Li+ on H2

A pulsed monoenergetic ⁷Li⁺ ion beam (lab. energy 10–40 eV) is scattered from a highly collimated (= 1.5°) H₂ nozzle beam. The time-of-flight spectrum of the ions scattered in the forward laboratory direction shows both a fast peak corresponding to forward center-of-mass scattering and a slow peak corresponding to wide-angle center-of-mass scattering. These peaks have been further resolved to show contributions from individual vibrational quantum transitions. From an analysis of the time-of flight spectra the differential inelastic cross sections for a wide range of angles and energies between 2 eV <E_cm < 9 eV have been determined. The spectra also contain information on rotational inelastic cross sections.     

Infrared spectra of negative ions with a strong,symmetric hydrogen bond (HO...H...OH)− and (H3CO...H...OCH3)−

From the multiple attenuated total internal reflection (MATIR) infrared spectrum of an aqueous KOH solution, the spectrum of the (HO)₂H^– ion, formed by a strong, symmetric H-bond, has been segregated. The spectrum of the analogous ion (CH₃O)₂H^– has been segregated from the MATIR infrared spectrum of a solution of KOCH₃ in methanol. The segregated spectra contain large numbers of individual bands that are not present in the spectra of the original components of the solution. This may be a consequence of strong interaction of vibrations of the proton in the central strong, symmetric hydrogen bond with vibrations of other groups in the ion.Translated from Izvestiya Akademii Nauk SSSR, Seriya Khimicheskaya, No. 6, pp. 1363–1366, June, 1991.     

Mass spectrometry of steroid systems

Summary 1. The mass spectra of epimeric tertiary alcohols of the D-homoestrane series and the acetates and 17a-trideuteromethyl analogs corresponding to them have been studied. A new approach to the determination of the configuration of tertiary steroid alcohols has been proposed in which the trideuteromethyl analogs of the epimeric alcohols are subjected to mass-spectrometric analysis. The presence in the mass spectrum of an epimer of a doublet of peaks M-H₂O and M-DOH indicates the a-alkyl-e-OH configuration, while the presence in the spectrum of an intense M-H₂O peak shows the presence of an axial OH group.2. The mass spectra of the epimeric secondary alcohols of the pregnane series taken with the use of a system of introducing the sample into the ion source has been investigated. It has been shown that the mass spectra of alcohols containing an a-OH group in rings C and D differ markedly from the spectra of the e-OH epimers with respect to the ratio of the intensities of the peaks M-H₂O and M⁺.Khimiya Prirodnykh Soedinenii, Vol. 3, No. 6, pp. 369–382, 1967     

The Structural and Optical Properties of 1,2,4-Triazolo[4,3-a]pyridine-3-amine

The structural and spectroscopic properties of a new triazolopyridine derivative (1,2,4-triazolo[4,3-a]pyridin-3-amine) are described in this paper. Its FTIR spectrum was recorded in the 100–4000 cm⁻¹ range and its FT-Raman spectrum in the range 80–4000 cm⁻¹. The molecular structure and vibrational spectra were analyzed using the B3LYP/6-311G(2d,2p) approach and the GAUSSIAN 16W program. The assignment of the observed bands to the respective normal modes was proposed on the basis of PED calculations. XRD studies revealed that the studied compound crystallizes in the centrosymmetric monoclinic space group P2₁/n with eight molecules per unit cell. However, the asymmetric unit contains two 1,2,4-triazolo[4,3-a]pyridin-3-amine molecules linked via N–H⋯N hydrogen bonds with a R₂²(8) graph. The stability of the studied molecule was considered using NBO analysis. Electron absorption and the luminescence spectra were measured and discussed in terms of the calculated singlet, triplet, HOMO and LUMO electron energies. The Stokes shifts derived from the optical spectra were equal to 9410 cm⁻¹ for the triazole ring and 7625 cm⁻¹ for the pyridine ring.