Calculation of molecular formulas in high-resolution mass spectrometry
Algorithm, decimal weights, and molecular formulas calculated by computer for high-resolution mass spectrometry application
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Algorithm, decimal weights, and molecular formulas calculated by computer for high-resolution mass spectrometry application
Two FORTRAN computer programs for the interpretation of low resolution mass spectra were prepared and tested. One is for the calculation of the molecular isotopic distribution of any species from stored elemental distributions. The program requires only the input of the molecular formula and was designed for compatability with any computer system. The other program is for the determination of all possible combinations of atoms (and radicals) which may form an ion having a particular integer mass. It also uses a simplified input scheme and was designed for compatability with any system.
Tables for reduction of high resolution mass spectral data
IBM 7090 computer program for calculation of molecular composition formulas from mass spectrometer data
Description of the DENDRAL (Dendritic Algorithm) project, the objectives of which were to base the computer program on an alogorithm that generates an exhaustive, nonredundant list of all the structural isomers of a given chemical composition, and to devise a computer program that would perform an organic structure determination, given a molecular formula and a mass spectrum. This program is called 'Heuristic DENDRAL' and it operates by using the known structure/spectrum correlations to constrain the DENDRAL isomer generator to produce a single isomer for that composition. The collaboration of chemists and computer scientists has produced a tool of some practical utility from the chemical viewpoint, and an interesting program from the viewpoint of artificial intelligence.
Organic compounds in the atmosphere vary widely in their molecular composition and chemical properties, so no single instrument can reasonably measure the entire range of ambient compounds. Over the past decade, a new generation of in-situ, field-deployable mass spectrometers has dramatically improved our ability to detect, identify, and quantify these organic compounds, but no systematic approach has been developed to assess the extent to which currently available tools capture the entire space of chemical identity and properties that is expected in the atmosphere. Reduced-parameter frameworks that have been developed to describe atmospheric mixtures are exploited here to characterize the range of chemical properties accessed by a suite of instruments. Multiple chemical spaces (e.g. oxidation state of carbon vs. volatility, and oxygen number vs. carbon number) were populated with ions measured by several mass spectrometers, with gas- and particle-phase α-pinene oxidation products serving as the test mixture of organic compounds. Few gaps are observed in the coverage of the parameter spaces by the instruments employed in this work, though the full extent to which comprehensive measurement was achieved is difficult to assess due to uncertainty in the composition of the mixture. Overlaps between individual ions and regions in parameter space were identified, both between gas- and particle-phase measurements, and within each phase. These overlaps were conservatively found to account for little (<10%) of the measured mass. However, challenges in identifying overlaps and in accurately converting molecular formulas into chemical properties (such as volatility or reactivity) highlight a continued need to incorporate structural information into atmospheric measurements.
The bulk analyses (determined with the broad beam electron microprobe technique) of lithic fragments are given in weight percentages and are arranged according to the rock classification. Within each rock group the analyses are arranged in order of increasing FeO content. Thin section and lithic fragment numbers are given at the top of each column of analysis and correspond to the numbers recorded on photo mosaics on file in the Institute of Meteoritics. CIPW molecular norms are given for each analysis. Electron microprobe mineral analyses (given in oxide weight percentages), structural formulae and molecular end member values are presented for plagioclase, olivine, pyroxene and K-feldspar. The minerals are selected mostly from lithic fragments that were also analyzed for bulk composition. Within each mineral group the analyses are presented according to the section number and lithic fragment number. Within each lithic fragment the mineral analyses are arranged as follows: Plagioclase in order of increasing CaO; olivine and pyroexene in order of increasing FeO; and K-feldspar in order of increasing K2O. The mineral grains are identified at the top of each column of analysis by grain number and lithic fragment number.
The application of ab initio quantum mechanical approaches in the study of metal atom clusters requires simplifying techniques that do not compromise the reliability of the calculations. Various aspects of the implementation of the effective core potential (ECP) technique for the removal of the metal atom core electrons from the calculation were examined. The ECP molecular integral formulae were modified to bring out the shell characteristics as a first step towards fulfilling the increasing need to speed up the computation of the ECP integrals. Work on the relationships among the derivatives of the molecular integrals that extends some of the techniques pioneered by Komornicki for the calculation of the gradients of the electronic energy was completed and a formulation of the ECP approach that quite naturally unifies the various state-of-the-art "shape- and Hamiltonian-consistent" techniques was discovered.
A triple infinite sum of formulas expressed as an expansion in Legendre polynomials is generated by use of computer algebra to represent the potential from the midpoint of two Slater-type orbitals; the charge density that determines the potential is given as the product of the two orbitals. An example using 1s orbitals shows that only a few terms are needed to obtain four-figure accuracy. Exact formulas are obtained for multipole moments by means of a careful study of expanded formulas, allowing an 'extrapolation to infinity'. This Loewdin alpha-function approach augmented by using a C matrix to characterize Slater-type orbitals can be readily generalized to all cases.
Integrated and integral Hellmann-Feyman formulas for isoelectronic molecular process energy difference
The effect of radiation-induced dissociation of hydrogen gas in nuclear rockets is studied. The dissociation degree is obtained by solving rate equations, which include the fast-ion induced dissociation and ionization of atomic and molecular hydrogens. Analytical formulas are used to estimate a change in the viscosity and the specific impulse. It was found that the fast-ion induced dissociation plays an important role in enhancing the specific impulse for nuclear rocket concepts using hydrogen gas at low pressures (less than 0.1 MPa) and low temperatures (less than 3000 K). It is also shown that the specific impulse is enhanced by mixing helium-3, lithium-6, boron-10, or uranium-235 with hydrogen.
In situ detection of organic molecules in the extraterrestrial environment provides a key step towards better understanding the variety and the distribution of building blocks of life and it may ultimately lead to finding extraterrestrial life within the Solar System. Here we present combined results of two separate experiments that enable us to realize such in situ life signature detection from the deep habitats of the "Ocean World": a hydrothermal reactor experiment simulating complex organic synthesis and a simulated fly-through capture experiment of organic-bearing microparticles using silica aerogels, followed by subsequent analysis. Both experiments employ peptide as a plausible organics existing in Encleadus plume particles produced in its subsurface ocean. Recent laboratory hydrothermal experiments and a theoretical model on silica saturation indicated an on going hydrothermal reactions in subsurface Enceladus ocean. Given the porous chondritic origin of the core, it is likely that organic compounds originated by radiation chemistry such as amino acid precursors could have been provided, leached, and altered through widespread water-rock interactions. By using the same laboratory experimental setup from the latest water-rock interaction study, we performed amino acid polymerization experiments for 144 days and monitored the organic complexity changing over time. So far over 3,000 peaks up to the size of greater than 600 MW were observed through the analysis of capillary electrophoresis time-of-flight mass spectrometry (CE-TOF-MS) with an indication of amino acid derivatives and short peptides. Generally abiotic polymerization of enantiomeric amino acids results in forming stereoisomeric peptides with identical molecular weight and formula as opposed to homochiral biopolymers. Assuming Enceladus plume particles may contain a mixture of stereoisomeric peptides, we were able to distinguish 16 of the 17 stereoisomeric tripeptides as a test sample using capillary electrophoresis (CE) under optimized conditions. We further conducted Enceladus plume fly-through capture experiment by accelerating peptides soaked in rock particles up to a speed of 5.7 km/s and capturing with originally developed hydrophobic silica aerogels. Direct peptide extraction with acetonitrile-water followed by CE analysis led to detection of only but two stereoisomeric acidic peptide peaks, presenting the first run-through hypervelocuty impact sample analysis targeting peptides as key molecule to to understand the ongoing astrobiology on Enceladus.
Quantitative electron microprobe data of Apollo 15 nonmare rake samples are presented. Bulk analyses of lithic fragments in the nomare rocks (expressed in oxide weight-percent) and the corresponding CIPW molecular norms are given. The mineralogy of the rocks and lithic fragments are also given; structural formulae for complete analyses and molecular end-members for all mineral analyses are included. The mineral analyses include pyroxene, olivine, plagioclase, barian K-feldspar, spinel and ilmenite, cobaltian metallic nickel-iron as well as SiO2-K2O-rich residual glass. Electron micropobe analyses (oxide weight percent) of glasses in loose fines and microbreccia samples and their CIPW molecular norms are presented along with electron microprobe data on bulk, mineral, and matrix glass from chondrules.
A new classification series of tricyanides is presented. Several tricyanides are synthesized by a simple method from aluminum chloride, benzonitrile, and a respective alkyl or phenyl chloride, purified by recrystallization and distillation, and then analyzed. Structural formulae are suggested, and molecular weights, melting points, and boiling points are determined for each.
A modified local plasma model is established. The Gordon-Kim's molecular charged density model is employed to obtain a formula to evaluate the stopping power of many useful molecular systems. The stopping power of H2 and He gas was calculated for incident proton energy ranging from 100 keV to 2.5 MeV. The stopping power of O2, N2, and water vapor was also calculated for incident proton energy ranging from 40 keV. to 2.5 MeV. Good agreement with experimental data was obtained. A discussion of molecular effects leading to department from Bragg's rule is presented. The equipartition rule and the effect of nuclear momentum recoiling in stopping power are also discussed.
The positron cross sections in H and H2 media are reevaluated, taking into account new experimental results. Using a Monte Carlo simulation, we find a positronium fraction before thermalization of 0.90 for H2, in good agreement with the previous experimental result given by Brown et al. (1986). For H we obtain an upper limit of 0.98. We study the behavior of the charge exchange annihilation in a cold phase (molecular cloud). We calculate a formula for the slowing-down time t, before annihilation lasting Delta t, via charge exchange, of a positron beam with a given energy for different medium densities and initial energies. An upper limit of 0.7 MeV for the initial energy of the positrons, annihilating in the molecular cloud G0.86 - 0.08 near the gamma ray source positronium and gives new time constraints on their possible observation.
In association with an ammonia survey of the southern Galaxy (Peters et al., 1986), a search was made for improved analytical formulas to expedite the data analysis. Semi-empirical formulas are presented which relate the kinetic temperature of a molecular cloud to the kinetic temperature used in full statistical equilibrium calculations. The formulas can be used in a simple way to improve the estimate of the kinetic temperature obtained from ammonia observations.
Integral Hellman-Feynman formula applied to binding energy of molecular H and LiH, using SCF wavefunctions for atomic states