Microfluidic systems in proteomics

We present the state-of-the-art in miniaturized sample preparation, immunoassays, one-dimensional and multidimensional analyte separations, and coupling of microdevices with electrospray ionization-mass spectrometry. Hyphenation of these different techniques and their relevance to proteomics will be discussed. In particular, we will show that analytical performances of microfluidic analytical systems are already close to fulfill the requirements for proteomics, and that miniaturization results at the same time in a dramatic increase in analysis throughput. Throughout this review, some examples of analytical operations that cannot be achieved without microfluidics will be emphasized. Finally, conditions for the spreading of microanalytical systems in routine proteomic labs will be discussed.     

Dielectric and shear mechanical alpha and beta relaxations in seven glass-forming liquids

We present shear mechanical and dielectric measurements taken on seven liquids: triphenylethylene, tetramethyltetra-phenyltrisiloxane (Dow Corning 704 diffusion pump fluid), polyphenyl ether (Santovac 5 vacuum pump fluid), perhydrosqualene, polybutadiene, decahydroisoquinoline (DHIQ), and tripropylene glycol. The shear mechanical and dielectric measurements are for each liquid performed under identical thermal conditions close to the glass transition temperature. The liquids span four orders of magnitude in dielectric relaxation strength and include liquids with and without Johari-Goldstein beta relaxation. The shear mechanical data are obtained by the piezoelectric shear modulus gauge method giving a large frequency span (10(-3)-10(4.5) Hz). This allows us to resolve the shear mechanical Johari-Goldstein beta peak in the equilibrium DHIQ liquid. We moreover report a signature (a pronounced rise in the shear mechanical loss at frequencies above the alpha relaxation) of a Johari-Goldstein beta relaxation in the shear mechanical spectra for all the liquids which show a beta relaxation in the dielectric spectrum. It is found that both the alpha and beta loss peaks are shifted to higher frequencies in the shear mechanical spectrum compared to the dielectric spectrum. It is in both the shear and dielectric responses found that liquids obeying time-temperature superposition also have a high-frequency power law with exponent close to -12. It is moreover seen that the less temperature dependent the spectral shape is, the closer it is to the universal -12 power-law behavior. The deviation from this universal power-law behavior and the temperature dependencies of the spectral shape are rationalized as coming from interactions between the alpha and beta relaxations.     

Exact effective Hamiltonian theory. II. Polynomial expansion of matrix functions and entangled unitary exponential operators

Our recent exact effective Hamiltonian theory (EEHT) for exact analysis of nuclear magnetic resonance (NMR) experiments relied on a novel entanglement of unitary exponential operators via finite expansion of the logarithmic mapping function. In the present study, we introduce simple alternant quotient expressions for the coefficients of the polynomial matrix expansion of these entangled operators. These expressions facilitate an extension of our previous closed solution to the Baker-Campbell-Hausdorff problem for SU(N) systems from N< or =4 to any N, and thereby the potential application of EEHT to more complex NMR spin systems. Similarity matrix transformations of the EEHT expansion are used to develop alternant quotient expressions, which are fully general and prove useful for evaluation of any smooth matrix function. The general applicability of these expressions is demonstrated by several examples with relevance for NMR spectroscopy. The specific form of the alternant quotients is also used to demonstrate the fundamentally important equivalence of Sylvester's theorem (also known as the spectral theorem) and the EEHT expansion.     

Strained, stable 2-aza-1-phosphabicyclo[n.1.0]alkane and -alkene Fe(CO)4 complexes with dynamic phosphinidene behavior

The synthesis of highly strained bicyclic phosphirane and phosphirene iron-tetracarbonyl complexes, that is, complexes with 2-aza-1-phosphabicyclo[n.1.0]alkanes and -alkenes (n = 3-5), is explored by using intramolecular cycloaddition of an in situ generated electrophilic phosphinidene complex, [R(iPr)NP=Fe(CO)(4)], to its C=C- and C[triple chemical bond]C-containing R substituent. Saturated bicyclic complexes 7 a-c with n = 4-2 are remarkably stable, as illustrated by the X-ray crystal structure for 7 b (n=3), yet all readily undergo retroaddition to react with phenylacetylene. Shuttling of the phosphinidene iron complex between two equivalent C=C groups is demonstrated for a 1-butene-substituted 2-aza-1-phosphabicyclo[3.1.0]hexane by selective (1)H NMR magnetization transfer from the phosphirane protons to the olefinic protons. Even the more strained unsaturated bicycles 17 a,b (n = 4,3) are surprisingly stable as illustrated by the X-ray crystal structure for 17 a (n = 4), but the smaller phosphabicyclo[3.1.0]hex-5-ene (17 c, n = 2) dimerizes to tricyclic 19 with a unique ten-membered heterocyclic ring; an X-ray crystal structure is reported. Like their saturated analogues also the bicyclic phosphirenes readily undergo retroaddition as shown by the reaction of their phosphinidene iron moiety with phenylacetylene.     

Measurement of peak areas in energy-dispersive x-ray fluorescence spectrometry

An algorithm is outlined for the measurement of peak areas in spectra obtained by energy-dispersive x-ray fluorescence techniques. Each fluorescence line is assumed to be a pure Gaussian function. Initially, a calibration equation relating the full width at half maximum (FWHM) to the centre of the peak is set up. Then, in an unknown spectrum, the Gauss function parameters are found by a stepwise procedure making a non-linear minimization procedure redundant. First, the background is estimated and subtracted; then the peak centres are found, and the FWHM is given by the calibration equation, which relates FWHM to the position of the peak centre. Finally, the amplitudes are estimated from a set of linear equations. The reliability of the proposed algorithm was proved for a variety of samples. The method was compared with a non-linear x² minimization routine. Quantitative analysis of two standard reference alloys was accurate. Below 20 keV, a suitable FWHM calibration is obtained from a set of K_α lines. Above 20 keV, a set of K_β1,3 lines is recommended.     

Multilabeled pyrene-functionalized 2'-amino-LNA probes for nucleic acid detection in homogeneous fluorescence assays

Homogeneous fluorescence assays for detection of nucleic acids are widely used in biological sciences. Typically, probes such as molecular beacons that rely on distance-dependent fluorescence quenching are used for such assays. Less attention has been devoted to tethering a single kind of fluorophores to oligonucleotides and exploiting hybridization-induced modulation of fluorescence intensity for nucleic acid detection. Herein, thermal denaturation experiments and fluorescence properties of oligodeoxyribonucleotides containing one or more 2'-N-(pyren-1-yl)carbonyl-2'-amino-LNA monomer(s) X are described. These pyrene-functionalized 2'-amino-LNAs display large increases in thermal stability against DNA/RNA complements with excellent Watson-Crick mismatch discrimination. Upon duplex formation of appropriately designed 2'-N-(pyren-1-yl)carbonyl-2'-amino-LNA probes and complementary DNA/RNA, intensive fluorescence emission with quantum yields between 0.28 and 0.99 are observed. Quantum yields of such magnitudes are unprecedented among pyrene-labeled oligonucleotides. Molecular modeling studies suggest that the dioxabicyclo[2.2.1]heptane skeleton and amide linkage of monomer X fix the orientation of the pyrene moiety in the minor groove of a nucleic acid duplex. Interactions between pyrene and nucleobases, which typically lead to quenching of fluorescence, are thereby reduced. Duplexes between multiple modified probes and DNA/RNA complements exhibit additive increases in fluorescence intensity, while the fluorescence of single stranded probes becomes increasingly quenched. Up to 69-fold increase in fluorescence intensity (measured at lambda(em) = 383 nm) is observed upon hybridization to DNA/RNA. The emission from duplexes of multiple modified probes and DNA/RNA at concentrations down to less than 500 nM can easily be seen by the naked eye using standard illumination intensities.     

Effect of catalyst partitioning in Co(II) mediated catalytic chain transfer miniemulsion polymerization of methyl methacrylate

The effect of catalyst partitioning over the organic and water phases in the catalytic chain transfer mediated miniemulsion polymerization was investigated and a mathematical model developed to describe the instantaneous degree of polymerization of the formed polymer. Experimental and predicted instantaneous degrees of polymerization prove to be in excellent agreement. © 2008 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 46: 5839–5849, 2008     

An improved perfectly matched layer for the eigenmode expansion technique

When performing optical simulations for rotationally symmetric geometries using the eigenmode expansion technique, it is necessary to place the geometry under investigation inside a cylinder with perfectly conducting walls. The parasitic reflections at the boundary of the computational domain can be suppressed by introducing a perfectly matched layer (PML) using e.g. complex coordinate stretching of the cylinder radius. However, the traditional PML suffers from an artificial field divergence limiting its usefulness. We show that the choice of a constant cylinder radius leads to mode profiles with exponentially increasing field amplitudes resulting in numerical instability. As a remedy we propose an improved PML based on a mode-dependent cylinder radius and mode profiles with stable field amplitudes. The new PML formulation eliminates the artificial field divergence and ensures numerical stability.     

Theorems that admit exceptions, including a remark on Toulmin

It is a plausible assumption that proof-novices try to make sense of the meaning of mathematical proof out of the perspective of every day thinking. In every day thinking, however, the domain of objects to which a general statement refers is not completely and definitely determined. Thus the very notion of a “universally valid statement” is not as obvious as it might seem. The phenomenon of a statement with an indefinite domain of reference can also be found in the history of mathematics when authors spoke of “theorems that admit exceptions”. Without having understood and accepted the theoretical nature of the idea of a universally valid statement the logical distinctions between, for example an implication and its converse loose their meaning for the learner. This might explain some disappointing findings of empirical research. Following a proposal by Inglis, Mejia–Ramos and Simpson it is suggested that in modelling mathematical thinking in proof situations the full scheme of Toulmin should be used including qualifications and rebuttals rather than a reduced version as is frequently done.     

磷酸掺杂的ab-PBI膜及其在高温质子交换膜燃料电池中的应用

以3,4-二氨基苯甲酸为单体合成了ab-聚苯并咪唑.研究了磷酸掺杂的该质子交换膜在80~200℃,不同湿度以及不同酸掺杂量下的质子电导率.该质子交换膜可作为燃料电池的膜电解质,在常压不增湿的条件下,可使电池运行温度达到200℃.