Framework for network modularization and Bayesian network analysis to investigate the perturbed metabolic network

Background: Genome-scale metabolic network models have contributed to elucidating biological phenomena, and predicting gene targets to engineer for biotechnological applications. With their increasing importance, their precise network characterization has also been crucial for better understanding of the cellular physiology.Results: We herein introduce a framework for network modularization and Bayesian network analysis (FMB) to investigate organism's metabolism under perturbation. FMB reveals direction of influences among metabolic modules, in which reactions with similar or positively correlated flux variation patterns are clustered, in response to specific perturbation using metabolic flux data. With metabolic flux data calculated by constraints-based flux analysis under both control and perturbation conditions, FMB, in essence, reveals the effects of specific perturbations on the biological system through network modularization and Bayesian network analysis at metabolic modular level. As a demonstration, this framework was applied to the genetically perturbed Escherichia coli metabolism, which is a lpdA gene knockout mutant, using its genome-scale metabolic network model.Conclusions: After all, it provides alternative scenarios of metabolic flux distributions in response to the perturbation, which are complementary to the data obtained from conventionally available genome-wide high-throughput techniques or metabolic flux analysis

Photometric defocus observations of transiting extrasolar planets

We have carried out photometric follow-up observations of bright transiting extrasolar planets using the CbNUOJ 0.6m telescope. We have tested the possibility of obtaining high photometric precision by applying the telescope defocus technique allowing the use of several hundred seconds in exposure time for a single measurement. We demonstrate that this technique is capable of obtaining a root-mean-square scatter of order sub-millimagnitude over several hours for a V $\sim$ 10 host star typical for transiting planets detected from ground-based survey facilities. We compare our results with transit observations with the telescope operated in in-focus mode. High photometric precision is obtained due to the collection of a larger amount of photons resulting in a higher signal compared to other random and systematic noise sources. Accurate telescope tracking is likely to further contribute to lowering systematic noise by probing the same pixels on the CCD. Furthermore, a longer exposure time helps reducing the effect of scintillation noise which otherwise has a significant effect for small-aperture telescopes operated in in-focus mode. Finally we present the results of modelling four light-curves for which a root-mean-square scatter of 0.70 to 2.3 milli-magnitudes have been achieved.Comment: 12 pages, 11 figures, 5 tables. Submitted to Journal of Astronomy and Space Sciences (JASS

Image-guided transcranial focused ultrasound stimulates human primary somatosensory cortex

Focused ultrasound (FUS) has recently been investigated as a new mode of non-invasive brain stimulation, which offers exquisite spatial resolution and depth control. We report on the elicitation of explicit somatosensory sensations as well as accompanying evoked electroencephalographic (EEG) potentials induced by FUS stimulation of the human somatosensory cortex. As guided by individual-specific neuroimage data, FUS was transcranially delivered to the hand somatosensory cortex among healthy volunteers. The sonication elicited transient tactile sensations on the hand area contralateral to the sonicated hemisphere, with anatomical specificity of up to a finger, while EEG recordings revealed the elicitation of sonication-specific evoked potentials. Retrospective numerical simulation of the acoustic propagation through the skull showed that a threshold of acoustic intensity may exist for successful cortical stimulation. The neurological and neuroradiological assessment before and after the sonication, along with strict safety considerations through the individual-specific estimation of effective acoustic intensity in situ and thermal effects, showed promising initial safety profile; however, equal/more rigorous precautionary procedures are advised for future studies. The transient and localized stimulation of the brain using image-guided transcranial FUS may serve as a novel tool for the non-invasive assessment and modification of region-specific brain functionopen43

Redirected Walking in Infinite Virtual Indoor Environment Using Change-blindness

We present a change-blindness based redirected walking algorithm that allows a user to explore on foot a virtual indoor environment consisting of an infinite number of rooms while at the same time ensuring collision-free walking for the user in real space. This method uses change blindness to scale and translate the room without the user's awareness by moving the wall while the user is not looking. Consequently, the virtual room containing the current user always exists in the valid real space. We measured the detection threshold for whether the user recognizes the movement of the wall outside the field of view. Then, we used the measured detection threshold to determine the amount of changing the dimension of the room by moving that wall. We conducted a live-user experiment to navigate the same virtual environment using the proposed method and other existing methods. As a result, users reported higher usability, presence, and immersion when using the proposed method while showing reduced motion sickness compared to other methods. Hence, our approach can be used to implement applications to allow users to explore an infinitely large virtual indoor environment such as virtual museum and virtual model house while simultaneously walking in a small real space, giving users a more realistic experience.Comment: https://www.youtube.com/watch?v=s-ZKavhXxd