核磁共振代谢组学数据的尺度归一化新方法

在核磁共振代谢组学数据预处理中,尺度归一化主要目的是提高特征代谢物信息的权重,减小噪声及无关代谢物信息的影响,从而降低后续模式识别分析的难度. 本文提出一种新的尺度归一化方法,该方法不强调各变量在尺度上的归一,而是在原始数据的基础上,通过提高那些稳定性高、且在不同类别样本中具有显著差异性的变量的权重,以增强与特征代谢物相关的信息. 文中分别采用模拟数据和真实代谢组学数据对新归一化方法的性能进行评估,并与单位方差法(Unit Variance)、变量稳定性(Variable Stability)和尺度缩放法(Level Scaling)等常用的尺度归一化方法做比较. 研究结果表明：新归一化方法能够提高多变量统计模型的预测能力,较好地保留核磁共振谱的分子信息,有助于特征代谢物的识别,并使后续的数据分析结果具有更好的可解释性.     

Multiparticle simulation of ion motion in the ion trap mass spectrometer: Resonant and direct current pulse excitation

A PC-based program that simulates the behavior of a collection of ions is extended to include the effects of collisions with the buffer gas and enhanced visualization methods. The simulations are based on the quadrupole field associated with the actual ion trap electrode structure. Ionization is simulated in such a way as to distribute ionization events randomly over rf phase angles and yield a realistic collection of stored ions. The effects of buffer gas collisions on ion motion during both mass-selective instability and resonance ejection scans are found to include the expected dampening of spatial excursions as well as limitation of the kinetic energy of trapped ions. In both experiments, ion ejection occurs over a number of secular cycles in the vicinity of the theoretical instability point. Activation via a resonant ac signal or a short dc pulse is shown to result in phase-locking of the ions as well as the expected increase in the size of the excursions in the z direction and in ion kinetic energy. Collisions cause dephasing and loss of kinetic energy. Radial dc activation is compared with activation in the axial direction. Experimental data for dc pulse activation of the n-butylbenzene molecular ion are analyzed in phase space and the onset of surface-induced dissociation is correlated with changes in the experimental m/z 91 to m/z 92 fragment ion ratio. Poincaré sections are shown for resonantly excited ions and their value in demonstrating improvement of the resolution of these experiments over conventional mass-selective instability scans is shown.     

Where is the brain inside the brain?

Biological brains are capable of general learning without supervision. This is learning across multiple domains without interference. Unlike artificial neural networks, in real brains, learned information is not purely encoded in real-valued weights but instead it resides in many neural aspects. Such aspects include, dendritic and axonal morphology, number and location of synapses, synaptic strengths and the internal state of neural components. Natural evolution has come up with extraordinary ‘programs’ for neurons that allow them to build learning systems through group activity. The neuron is the ‘brain within the brain’. We argue that evolving neural developmental programs which when executed continuously build, shape and adjust neural networks is a promising direction for future research. We discuss aspects of neuroscience that are important, and examine a model that incorporates many of these features that has been applied to a number of problems: wumpus world, checkers and maze solving.     

Transitivity conditions in infinite graphs

We study transitivity properties of graphs with more than one end. We completely classify the distance-transitive such graphs and, for all k≥3, the k-CS-transitive such graphs.     

Metabolic profiling of rodent biological fluids via 1H NMR spectroscopy using a 1 mm microlitre probe

The application of a 1 mm TXI (1H/13C/15N) microlitre NMR probe with z-gradient for metabolic profiling of biofluids is described. The probe was used to provide spectral profiles for rat blood plasma using only approximately 2 microl of fluid with a range of solvent suppression techniques. Using a similar amount of fluid, spectra were obtained from rat and mouse cerebrospinal fluid, demonstrating that the probe could be used to profile rodents metabolically via biofluids previously inaccessible to NMR analysis without the need for termination.     

Heteroatom Polysilylenes

Heteroatom polysilylenes with Cl, OR and NR₂ substituents attached to the silicon chain through the heteroatom are described. The relationship between the single crystal X-ray structures of octachlorocyclotetrasilane Si₄Cl₈ and perchloropolysilylene, (SiCl₂)_n, is discussed with reference to possible mechanisms for its phototopochemical synthesis from Si₄Cl₈. Substitution with alcohols yields the bis(alkoxy)polysilylenes, and the origin of the red-shifted UV spectra are discussed in terms of the electronic interaction between oxygen n and silicon orbitals. Substitution with secondary amines yields soluble, yellow polymers with even longer wavelength UV absorption maxima. Effects of the alkyl chain length on hydrolytic stability are considered.     

Fermi surface of 3d1 perovskite CaVO3 near the Mott transition

We present a detailed de Haas-van Alphen effect study of the perovskite CaVO3, offering an unprecedented test of electronic structure calculations in a 3d transition metal oxide. Our experimental and calculated Fermi surfaces are in good agreement, but only if we ignore large orthorhombic distortions of the cubic perovskite structure. Subtle discrepancies may shed light on an apparent conflict between the low energy properties of CaVO3, which are those of a simple metal, and high energy probes which reveal strong correlations that place CaVO3 on the verge of a metal-insulator transition.