A correlation method in library search

The identification of unknown pure compounds or mixtures by means of mass spectral library search can be improved by partly resolving the spectra of the individual components within the spectrum of the measured unknown. This is accomplished by investigating sequential spectra in series of spectra; masses with highly correlating sequential intensities are clustered into individual groups. On the assumption that correlated masses belong to the same component spectrum, a filtering algorithm is developed to exclude spectra of non-identical compounds. The basic ideas, methods, examples and experiences gained with applications are reported.     

An integrated method for spectrum extraction and compound identification from gas chromatography/mass spectrometry data

A method is presented for extracting individual component spectra from gas chromatography/mass spectrometry (GC/MS) data files and then using these spectra to identify target compounds by matching spectra in a reference library. It extends a published “model peak” approach which uses selected ion chromatograms as models for component shape. On the basis of this shape, individual mass spectral peak abundance profiles are extracted to produce a “purified” spectrum. In the present work, ion-counting noise is explicitly treated and a number of characteristic features of GC/MS data are taken into account. This allows spectrum extraction to be reliably performed down to very low signal levels and for overlapping components. A spectrum match factor for compound identification is developed that incorporates a number of new corrections, some of which employ information derived from chromatographic behavior. Test results suggest that the ability of this system to identify compounds is comparable to that of conventional analysis.     

Identification of unknown compounds using data bases and computer simulation of mass spectra

The possibility of identification based on the comparison of experimental electron-ionization mass spectrum of an unknown (in our case, model) compound with the mass spectra of the candidate compounds generated by the Mass Frontier software has been demonstrated by the example of three model compounds. The structural isomers of the identified substances found in the ChemExper database have been used as the candidate compounds. The candidate substances have been ranged by the degree of similarity between their simulated mass spectra and the experimental mass spectrum of the unknown compound. The mass spectra have been compared on the basis of the algorithm used in the NIST MS Search standard search system. In all three cases, the sought-after structure has been indicated as the most probable one of all the candidate structures.     

Interpretation Automatique des Spectres de Masse de Composes Organiques. Mise au Point

Computerized methods for interpretation of mass spectra are increasing and many papers have now been published. Three different approaches can be used to identify an unknown compound. These methods are reviewed and discussed. First, the heuristic technique which tries to simulate the reasoning of the chemist and deduce the formulae. The only information needed are the mass spectra, the empirical formulae and the n.m.r. spectra. Some promising results have been obtained but the method has important restrictions. Another approach represents the mass spectra as points in a hyperspace. By developing decision surfaces it is possible to classify an unknown compound. This is called pattern recognition and the different empirical methods for recognizing patterns in mass spectral data are explained and reported. The last and simplest technique is to match an unknown spectrum against a library of standard references. When the unknown spectrum is in the library, this approach gives the best results.     

Method for the construction of basis spectra of multicomponent systems. The zero correlation coefficient criterion

A new method is proposed for factoring the spectrum of a multicomponent system when the basis spectra of its components are unknown and the set of the weighting coefficients in the initial spectrum is incomplete. At the basis of this method is the postulate that there is no correlation between the basis spectra. A physically significant basis is constructed by linear algebra methods using this postulate. The components of the basis satisfy the zero linear correlation coefficient criterion. This method was successfully tested for two two-component systems, whose basis spectra are a priori not correlated.Russian International Friendship University and Joint Institute for Nuclear Research, Dubna. Translated from Zhurnal Strukturnoi Khimii, Vol. 34, No. 1, pp. 44–53, January–February, 1993.     

Adaptive multicomponent analysis by genetic algorithms

The applicability of genetic algorithms for solving multicomponent analyses is systematically examined. As a genetic algorithm (GA), the basic proposal of Goldberg is implemented in a straightforward manner to simulate multicomponent analyses in analogy to the well-established UV-vis or IR methods, especially multicomponent regression. The main focus of the study is to investigate the behavior of the genetic algorithm in order to compare it with the well-known behavior of multicomponent regression. A remarkable difference between the two methods is that the genetic algorithm method does not need any calibration procedure because of its pure searching characteristic. As important features of multicomponent systems, the degree of signal overlap (selectivity), the behavior of systems with known and unknown component numbers and qualities, and linear as well as nonlinear relationships between the analytical signal and concentration are varied within the simulations. According to multicomponent regression, recovering concentrations by a genetic algorithm is of limited applicability with the exception of systems at a low degree of signal overlap. On the other hand, the recovery of a probe spectrum in the analytical process always gives satisfactory results independent of the features of the probe system. The genetic algorithm obviously shows autoadaptive behavior in probe spectrum recovery. The quality and quantity of the resulting components may dramatically differ from the given probe, although the resulting spectrum is nearly the same. In such cases, the resulting component mixture can be interpreted as an imitation of the probe. As well probe spectra, theoretically designed spectra can also be autoadapted by genetic algorithms. The only limitation is that the desired spectrum must, of course, be incorporated into the search space defined by the involved components. Furthermore, a spectral signal is only one single property of a chemical compound or mixture. Because of the nonlinear search characteristic of genetic algorithms, any other chemical or physical property can also be treated as a desired property. Therefore, the conclusion of the study is well-founded that an old challenge of applied chemistry, namely, the development of new chemical products with desired properties, seems to be reachable under the control of genetic algorithms.     

ESI-MS/MS library of 1,253 compounds for application in forensic and clinical toxicology

An electrospray ionization tandem mass spectrometry (ESI-MS/MS) library which contains over 5,600 spectra of 1,253 compounds relevant in clinical and forensic toxicology has been developed using a hybrid tandem mass spectrometer with a linear ion trap. Pure compound solutions—in some cases solutions made of tablets—were prepared and 1 to 2,000 ng of each compound were injected into the system using standard reversed-phase analytical columns with gradient elution. To obtain maximum mass spectral information enhanced product ion spectra were acquired with positive and/or negative ionization at low, medium, and high collision energies and additionally applying collision energy spread. In this mode, all product ions generated by the different collision energies are trapped in the linear ion trap prior to their detection. The applicability of the library for other types of hybrid tandem mass spectrometers with a linear ion trap of the same manufacturer as well as a standard triple-quadrupole tandem mass spectrometer has been investigated with a selection of compounds. The spectra of the developed library can be used to create methods for target analysis, either screening methods or quantitative procedures by generating transitions for multiple reaction monitoring. For those procedures, suitable transitions and convenient collision energies are selected from the library. It also has been utilized to identify compounds with a multi target screening approach for clinical and forensic toxicology with a standardized and automated system. The novel aspects compared to our former library produced with a standard triple-quadrupole mass spectrometer are the enlargement of the ESI-MS/MS library and the additional acquisition of spectra with collision energy spread.     

Simultaneous quantitative analysis of isobars by tandem mass spectrometry from unresolved chromatographic peaks

A method was developed for the simultaneous quantitation of isobars from unresolved chromatographic peaks. The method is based on differences in branching ratios of ion abundances in their tandem mass spectra and an assumption that the product ion mass spectra of a mixture can be considered as a linear combination of the spectra of individual constituents. We present analytical equations and a matrix-based approach for deconvoluting the concentration of individual components from the total peak intensity for two and three isobars and also a matrix-based generalization to any number of compounds. The feasibility of the simultaneous analysis of mixtures containing two compounds was assessed. The approach was evaluated for the analysis of structural isomers of methylmalonic and succinic acids in human plasma and urine samples for a group of 270 samples. The linear regression equation, standard error and correlation coefficient for the agreement with a traditional method utilizing chromatographic separation of the isomers were y = 0.999x - 0.005, 0.024 micro mol l(-1), and 0.985, respectively. The utility of a spectral contrast angle as a predictor of analysis feasibility was evaluated.     

Standardless Analysis of Multicomponent Mixtures of Substances by Time-Resolved Vibronic Spectroscopy

A new approach to the quantitative and qualitative standardless analysis of complex substances based on experimental time-dependent vibronic luminescence spectra (in the UV and visible regions) is proposed. The approach requires no preliminary calculation of absolute intensities for molecular models. It is shown that this analysis can be carried out for both individual substances and multicomponent mixtures, including unknown substances and mixtures of unknown composition. The concentration ranges of mixture components available for the analysis are evaluated, depending on the optical properties of mixtures.     

Enhanced spectrum matching of mixed mass spectra by means of quality factors

A system of computer programs for recognizing impure or mixed spectra was assembled that provided automatic subtraction of reference mass spectra from a mixed spectrum. The software was 99% successful in recognizing pure spectra for the cases tested. Subtractions were done on mixed spectra in 70% of the cases tested. Spectrum subtraction enhanced the ability of the matching program to match components of a multicomponent mixture correctly, whereas quality factors were a great aid in the evaluation of the overall match validity.     

Deconvolution of mass spectra measured with a non-uniform detector array to give accurate ion abundances

Array detectors are under active development since they offer large improvements in the efficiency of mass spectrum measurements. High quality is always a requirement whether array detectors are used for ions, electrons, UV, x-rays, etc., but in mass spectrometry the very high accuracy frequently needed in ion abundance measurements for isotope ratios is unique. These demands necessitate modelling the measurement process and careful deconvolution of the measured data. A linear model in terms of matrix algebra is presented in which the incident spectrum (unknown) and the measured spectrum are represented by column matrices and the action of the detector array on the incident spectrum is represented by an experimentally measurable square 'A' matrix. Residual noise in this matrix can be minimized following a singular value decomposition procedure and its use in 'forward deconvolution' of measured spectra is discussed. The random error in the incident ion counts is accounted for after the deconvolution since this is not an error from the perspective of the detector. The microchannel plate electron multiplier gain distribution is an important feature of the deconvolution.     

化学计量学在我国光度分析中的进展

本文介绍了化学计量学在我国光度分析中的研究应用及某些进展。这些方法可用于消除干扰,改善选择性,实现无机、有机及药物多组分混合物以及复方制剂的同时测定。     

Product ion mobility as a promising tool for assignment of positional isomers of drug metabolites

Travelling wave ion mobility spectrometry - mass spectrometry (TWIMS-MS) was evaluated as a tool for structural identification of metabolites of small molecule drugs in cases where the exact position of the biotransformation could not be identified by conventional tandem mass spectrometry. Test sets of compounds containing biotransformations at aromatic positions were analyzed. These present a problem for traditional MS methods since an atomic level localization of the biotransformation cannot normally be determined from MS(n) spectra. In addition to ion mobility measurements of the intact metabolite ions, ion mobility measurements of product ions were also made and the results compared with calculated values. This approach reduces the complexity of the problem, making theoretical calculations easier and more predictable when a modeled collision cross section (CCS) is required. A good relative correspondence between theoretical and measured CCSs was obtained allowing the identification of the exact position of the biotransformation. It was also demonstrated that authentic standards with substructures identical to those in the unknown can be used to assign the exact position of the biotransformation. In this approach the identification was based on the comparison of the drift times or CCSs for product ions of the standard, with those of the same product ions in the unknown.     

New way to quantify multiple steroidal compounds in wastewater by comprehensive two-dimensional gas chromatography–time-of-flight mass spectrometry

The applicability of comprehensive two-dimensional gas chromatography coupled with time-of-flight mass spectrometry to the screening of steroidal compounds in wastewater is demonstrated. Advanced software was utilized to identify unknown compounds in complex two-dimensional chromatograms exploiting retention indices and two different mass spectral databases. Response factors calculated as a function of the individual mass spectra of six commercial standards at different concentrations were used to develop a model allowing the quantitation of all steroidal compounds identified in the sample. The model, based on partial least squares regression equations, provided good accuracy (prediction error < 16%) in the quantitation of steroidal compounds, so offering a valuable alternative to conventional quantitation methods where reference compounds are required for the verification of analytical measurements. Special attention was paid to the development of an exhaustive sample preparation method for the separate analysis of conjugated and free steroids in both water phase and suspended solid particles. The method, including the exploitation of chemometrics, was successfully applied to the determination of steroidal compounds in effluent and influent waters collected at a local wastewater treatment plant.     

Computer-aided interpretation of mass spectra. Information on substructural probabilities form stirs

The capability of the ‘Self-Training Interpretive and Retrieval System’ has been extended so that the compounds selected as providing the best match in each data class to the unknown mass spectrum are examined by the computer for the presence of each of 179 common substructural fragments. Stastical methods were used to evaluate the selectivity for identification of each substructure by each data class using a reference file of 18 806 spectra of different compounds. In tests using at least 373 unknown spectra for each of the substructures, with criteria that gave a mean reliability of 98.1%, the method averaged 49% recall, which corresponds to the identification of 2.55 substructures per unknown spectrum, as well as the normal “Self-Training Interpretative and Retrieval System” match-factor results, requires 68 s on a laboratory computer. The method is also available to outside users on an international computer network.     

On the risk of false positive identification using multiple ion monitoring in qualitative mass spectrometry: Large-scale intercomparisons with a comprehensive mass spectral library

Analysts involved in qualitative mass spectrometry have long debated the minimum data requirements for demonstrating that signals from an unknown sample are identical to those from a known compound. Often this process is carried out by comparing a few selected ions acquired by multiple ion monitoring (MIM), with due allowance for expected variability in response. In a few past experiments with electron-ionization mass spectrometry (EI-MS), the number of ions selected and the allowable variability in relative abundance were tested by comparing one spectrum against a library of mass spectra, where library spectra served to represent potential false positive signals in an analysis. We extended these experiments by carrying out large-scale intercomparisons between thousands of spectra and a library of one hundred thousand EI mass spectra. The results were analyzed to gain insights into the identification confidence associated with various numbers of selected ions. A new parameter was investigated for the first time, to take into account that a library spectrum with a different base peak than the search spectrum may still cause a false positive identification. The influence of peak correlation among the specific ions in all the library mass spectra was also studied. Our computations showed that (1) false positive identifications can result from similar compounds, or low-abundance peaks in unrelated compounds if the method calls for detection at very low levels; (2) a MIM method's identification confidence improves in a roughly continuous manner as more ions are monitored, about one order of magnitude for each additional ion selected; (3) full scan spectra still represent the best alternative, if instrument sensitivity is adequate. The use of large scale intercomparisons with a comprehensive library is the only way to provide direct evidence in support of these conclusions, which otherwise depend on the judgment and experience of individual analysts. There are implications for residue chemists who would rely on standardized confirmation criteria to assess the validity of a given confirmatory method. For example, standardized confirmation criteria should not be used in the absence of interference testing and rational selection of diagnostic ions.     

Approaches towards the automated interpretation and prediction of electrospray tandem mass spectra of non-peptidic combinatorial compounds

Combinatorial chemistry is widely used within the pharmaceutical industry as a means of rapid identification of potential drugs. With the growth of combinatorial libraries, mass spectrometry (MS) became the key analytical technique because of its speed of analysis, sensitivity, accuracy and ability to be coupled with other analytical techniques. In the majority of cases, electrospray mass spectrometry (ES-MS) has become the default ionisation technique. However, due to the absence of fragment ions in the resulting spectra, tandem mass spectrometry (MS/MS) is required to provide structural information for the identification of an unknown analyte. This work discusses the first steps of an investigation into the fragmentation pathways taking place in electrospray tandem mass spectrometry. The ultimate goal for this project is to set general fragmentation rules for non-peptidic, pharmaceutical, combinatorial compounds. As an aid, an artificial intelligence (AI) software package is used to facilitate interpretation of the spectra. This initial study has focused on determining the fragmentation rules for some classes of compound types that fit the remit as outlined above. Based on studies carried out on several combinatorial libraries of these compounds, it was established that different classes of drug molecules follow unique fragmentation pathways. In addition to these general observations, the specific ionisation processes and the fragmentation pathways involved in the electrospray mass spectra of these systems were explored. The ultimate goal will be to incorporate our findings into the computer program and allow identification of an unknown, non-peptidic compound following insertion of its ES-MS/MS spectrum into the AI package. The work herein demonstrates the potential benefit of such an approach in addressing the issue of high-throughput, automated MS/MS data interpretation.     

Mass effect on the equienergetic high-spin/low-spin states of spin-crossover in 4,4'-bipyridine-bridged iron(II) polymeric compounds: synthesis,structure, and magnetic,Mössbauer,and theoretical studies

The suitability of the system [Fe(4,4'-bipy)(H(2)O)(2)(NCX)(2)].(4,4'-bipy), where 4,4'-bipy stands for 4,4'-bipyridine and X = S (1) and Se (2), as a precursor for the synthesis of new polymeric spin-crossover compounds has been studied. The reaction of 1 or 2 with bt (2,2'-bithiazoline) afforded the polymeric compounds of formula [Fe(4,4'-bipy)(bt)(NCX)(2)] (X = S (3), Se (4)). Compounds 3 and 4 are isostructural, but only the crystal structure of 3 has been fully determined. It crystallizes in the orthorhombic system, Fdd2 space group, Z = 24, with a = 38.962(8) A, b = 11.545(2) A, c = 30.889(6) A, V = 13895(5) A(3). The structure consists of linear chains constituted by trans-4,4'-bipy linked iron(II) ions; two cis equatorial positions are occupied by two pseudohalide ligands, and the remaining positions are filled by the bidentate bt ligand. Investigation of their magnetic properties and M?ssbauer spectra has revealed the occurrence of a low-spin (LS) <--> high-spin (HS) conversion involving 12% (3, S) and 20% (4, Se) of the Fe(II) ions. The thermal variation of the HS fraction is gradual with onset temperatures as low as 60 K. A theoretical approach based on the Ising-like model, completed with molecular vibrations, through harmonic oscillators, fits the data successfully, leading to an energy gap of 65 cm(-1) (3) and 86 cm(-1) (4) between the lowest LS and HS levels, and an average vibration frequency ohgrmacr;(LS) of 382 cm(-1) (3) and 365 cm(-1) (4) in the LS state. The ca. 1.05 omega(LS(3))/omega(LS(4)) ratio is close to the ca. 1.09 Se/S molar mass ratio. The simple electrovibrational Ising-like model permits us to explain, for the first time, a mass effect through the molecular vibrations in a spin-crossover complex that is in the unusual situation of equienergy among the HS and LS states.     

CE-MS Identification of Amino Acid Sequence Inversion as a New Degradation Pathway of an Aspartyl Model Tripeptide

CE-MS was employed to identify two unknown degradation products of the model tripeptide Phe-α-Asp-Gly heated at 80 °C in aqueous solution at pH 7.4. Both compounds displayed essentially identical mass spectra indicating the presence of peptide diastereomers. The [M + H]⁺-ion at m/z 338 suggested a tripeptide composed of the amino acids Phe, Gly and Asp. The fragmentation pattern indicated that Phe was not located at the N-terminus. Subsequently, the linear peptide α-Asp-Phe-Gly and the branched peptide Asp(Gly)-Phe were synthesized and analyzed by CE-MS. The mass spectrum of synthetic α-Asp-Phe-Gly was identical to that of the unknown compounds confirming the structure of the degradation products. Asp(Gly)-Phe displayed a complex fragmentation pattern. In conclusion, amino acid sequence inversion represents another degradation pathway of Phe-α-Asp-Gly at pH 7.4 besides known reactions including isomerization, enantiomerization, cyclization to diketopiperazine derivatives and backbone hydrolysis. The mechanism of the rearrangement of the amino acid sequence is proposed to proceed via an aza-bridged intermediate.