Notes

Posttraumatic Growth and also Devaluation from University or college Students' Perspectives.
We developed a gradient-based unsupervised clustering method to extract the patterns learned by the ResNet models. We demonstrated that simulated regulatory grammars are best learned in the penultimate layer of the ResNets, and the proposed method can accurately retrieve the regulatory grammar even when there is heterogeneity in the enhancer categories and a large fraction of TFBS outside of the regulatory grammar. However, we also identify common scenarios where ResNets fail to learn simulated regulatory grammars. Finally, we applied the proposed method to mouse developmental enhancers and were able to identify the components of a known heterotypic TF cluster. Our results provide a framework for interpreting the regulatory rules learned by ResNets, and they demonstrate that the ability and efficiency of ResNets in learning the regulatory grammar depends on the nature of the prediction task.In the modern genomic era, scientists without extensive bioinformatic training need to apply high-power computational analyses to critical tasks like phage genome annotation. At the Center for Phage Technology (CPT), we developed a suite of phage-oriented tools housed in open, user-friendly web-based interfaces. A Galaxy platform conducts computationally intensive analyses and Apollo, a collaborative genome annotation editor, visualizes the results of these analyses. The collection includes open source applications such as the BLAST+ suite, InterProScan, and several gene callers, as well as unique tools developed at the CPT that allow maximum user flexibility. We describe in detail programs for finding Shine-Dalgarno sequences, resources used for confident identification of lysis genes such as spanins, and methods used for identifying interrupted genes that contain frameshifts or introns. find more At the CPT, genome annotation is separated into two robust segments that are facilitated through the automated execution of many tools chained together in an operation called a workflow. First, the structural annotation workflow results in gene and other feature calls. This is followed by a functional annotation workflow that combines sequence comparisons and conserved domain searching, which is contextualized to allow integrated evidence assessment in functional prediction. Finally, we describe a workflow used for comparative genomics. Using this multi-purpose platform enables researchers to easily and accurately annotate an entire phage genome. The portal can be accessed at https//cpt.tamu.edu/galaxy-pub with accompanying user training material.A high-performance distributed sensing system based on a random fiber grating array (RFGA) and multi-frequency database demodulation (MFDD) method for strain induced delay time measurement is demonstrated. It enables a wide measurement range for both static and dynamic strain sensing. The proposed MFDD method can enlarge the strain measurement range, since the large strain variation induced time domain trace distortion could be compensated for by laser initial frequency changes. Furthermore, a random fiber grating made with embedded large random refractive index changes along the single-mode fiber could provide a stable reflection with a wide reflection spectrum range. Such a structure successfully improves the time delay measurement precision and achieves a large tuning range, as demonstrated by the database in which a set of pre-recorded undisturbed reflected Rayleigh traces form RFGA at various laser frequencies. Ultimately, a dynamic strain with a peak-to-peak value of 12.5µε at a vibration frequency of 50 Hz is accurately reconstructed when the pulse repetition rate is 1 kHz, which was not detected using a conventional chirped pulse phase-sensitive optical frequency domain reflectometers. The maximum measurable strain variation of about 12.5µε represents a factor of 3 improvement. This number is limited by a pre-recorded frequency scanning range of RFGA response in the database.We present a simple method to enable flexible tuning of non-diffracting beams in a two-dimensional nonlinear photonic crystal, based on the interference of two or more non-collinear second-harmonic beams. By manipulating the wavelengths of the beams and the angle of incidence of the fundamental wave, the arbitrary period and propagation length, as well as the wavelength of the generated nonlinear non-diffracting array beams, can be tuned flexibly. These light beams can trap and manipulate multiple particles, create new forms of optical imaging systems, and act within nonlinear devices to bring novel functionalities to integrated optics.In stochastic optical localization nanoscopy, it is common practice that a localization algorithm segments the power-effective pixels, which are brighter than a threshold, and discards the rest of a data frame. In this scenario, we investigate the power-effective Fisher information and the power-effective signal-to-noise ratio (SNR) with respect to an index ρ less then 1, indicating that ρ fraction of the emitter power is utilized. The ρ-power effective Fisher information and the ρ-power effective SNR are derived for the Airy and Gaussian point spread functions (PSFs). It is shown that as ρ increases, the root mean square error of the Fisher information sharply drops to its lower bound, approximately ρ=0.8 for both PSFs. This result suggests that the 80%-power effective data in the emitter localization are information sufficient, and the 80%-power effective SNR is appropriate to indicate the quality of a data frame in the presence of noise.Absolute timing jitter from a mode-locked laser is characterized with a record low noise floor of 122ys/Hz (1.5×10-14s2/Hz). We develop a novel measurement technique using cross-spectrum methods in combination with a dual balanced optical cross-correlator system, with three independent low-noise mode-locked lasers.We report a fiber-optic silicon Fabry-Perot temperature sensor with high speed by considering the end conduction effect, which refers to the unwanted heat transfer between the sensing element and the fiber stub delaying the sensor from reaching thermal equilibrium with the ambient environment. The sensor is constructed by connecting the narrow edge surface of a thin silicon plate to the edge of the microtube attached to the fiber tip. Compared to the traditional design where the silicon plate is attached to the fiber end face on its large plate surface, the new sensor design minimizes the heat transfer path to the fiber stub for improved sensor speed. It has the additional benefit of increased cavity length for improved resolution. We show that, compared with the sensor of traditional design, the sensor of the new design shortened the characteristic response time in still air from 83 ms to 13 ms and improved the sensor resolution by a factor of 12, from 0.15 K to 0.012 K.
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