Wideband spectrum sensing using step-sampling based on the multipath nyquist folding receiver

Wideband spectrum sensing with a high-speed analog-digital converter(ADC) presents a challenge for practical systems.The Nyquist folding receiver(NYFR) is a promising scheme for achieving cost-effective real-time spectrum sensing,which is subject to the complexity of processing the modulated outputs.In this case,a multipath NYFR architecture with a step-sampling rate for the different paths is proposed.The different numbers of digital channels for each path are designed based on the Chinese remainder theorem(CRT).Then,the detectable frequency range is divided into multiple frequency grids,and the Nyquist zone(NZ) of the input can be obtained by sensing these grids.Thus,high-precision parameter estimation is performed by utilizing the NYFR characteristics.Compared with the existing methods,the scheme proposed in this paper overcomes the challenge of NZ estimation,information damage,many computations,low accuracy,and high false alarm probability.Comparative simulation experiments verify the effectiveness of the proposed architecture in this paper.

Conformational dynamics as an intrinsic determinant of prion protein misfolding and neurotoxicity

The prion protein(PrP) is the key molecular and pathological mediator of prion diseases,a heterogeneous group of brain disorders with fatal outcomes.Prion diseases are rare but deserve special attention because of their unique familial,sporadic,and transmissible etiologies,all caused by a single agent:misfolded conformations of PrP.

MAUN:Memory-Augmented Deep Unfolding Network for Hyperspectral Image Reconstruction

Spectral compressive imaging has emerged as a powerful technique to collect the 3D spectral information as 2D measurements.The algorithm for restoring the original 3D hyperspectral images(HSIs)from compressive measurements is pivotal in the imaging process.Early approaches painstakingly designed networks to directly map compressive measurements to HSIs,resulting in the lack of interpretability without exploiting the imaging priors.While some recent works have introduced the deep unfolding framework for explainable reconstruction,the performance of these methods is still limited by the weak information transmission between iterative stages.In this paper,we propose a Memory-Augmented deep Unfolding Network,termed MAUN,for explainable and accurate HSI reconstruction.Specifically,MAUN implements a novel CNN scheme to facilitate a better extrapolation step of the fast iterative shrinkage-thresholding algorithm,introducing an extra momentum incorporation step for each iteration to alleviate the information loss.Moreover,to exploit the high correlation of intermediate images from neighboring iterations,we customize a cross-stage transformer(CSFormer)as the deep denoiser to simultaneously capture self-similarity from both in-stage and cross-stage features,which is the first attempt to model the long-distance dependencies between iteration stages.Extensive experiments demonstrate that the proposed MAUN is superior to other state-of-the-art methods both visually and metrically.Our code is publicly available at https://github.com/HuQ1an/MAUN.

Deep learning-based LPI radar signals analysis and identification using a Nyquist Folding Receiver architecture

Nyquist Folding Receiver(NYFR)is a perceptron structure that realizes a low probability of intercept(LPI)signal analog to information.Aiming at the problem of LPI radar signal receiving,the time domain,frequency domain,and time-frequency domain problems of signals intercepted by NYFR structure are studied.Combined with the time-frequency analysis(TFA)method,a radar recognition scheme based on deep learning(DL)is introduced,which can reliably classify common LPI radar signals.First,the structure of NYFR and its characteristics in the time domain,frequency domain,and time and frequency domain are analyzed.Then,the received signal is then converted into a time-frequency image(TFI).Finally,four kinds of DL algorithms are used to classify LPI radar signals.Simulation results demonstrate the correctness of the NYFR structure,and the effectiveness of the proposed recognition method is verified by comparison experiments.

Effect of chaperone–client interaction strength on Hsp70-mediated protein folding

Protein folding in crowding cellular environment often relies on the assistance of various chaperones. Hsp70 is one of the most ubiquitous chaperones in cells. Previous studies showed that the chaperone–client interactions at the open state tend to remodel the protein folding energy landscape and direct the protein folding as a foldase. In this work, we further investigate how the chaperone–client interaction strength modulates the foldase function of Hsp70 by using molecular simulations. The results showed that the time of substrate folding(including the whole folding step and substrate release step) has a non-monotonic dependence on the interaction strength. With the increasing of the chaperone–client interaction strength, the folding time decreases first, and then increases. More detailed analysis showed that when the chaperone–client interaction is too strong, even small number of chaperones–client contacts can maintain the substrate bound with the chaperone. The sampling of the transient chaperones–client complex with sparse inter-molecule contacts makes the client protein have chance to access the misfolded state even it is bound with chaperone. The current results suggest that the interaction strength is an important factor controlling the Hsp70 chaperoning function.

Improvement of Artificial Foldable Wing Models by Mimicking the Unfolding/Folding Mechanism of a Beetle Hind Wing

In an attempt to realize a flapping wing micro-air vehicle with morphing wings, we report on improvements to our previousfoldable artificial hind wing.Multiple hinges, which were implemented to mimic the bending zone of a beetle hind wing, weremade of small composite hinge plates and tiny aluminum rivets.The buck-tails of rivets were flared after the hinge plates wereassembled with the rivets so that the folding/unfolding motions could be completed in less time, and the straight shape of theartificial hind wing could be maintained after fabrication.Folding and unfolding actions were triggered by electrically-activatedShape Memory Alloy (SMA) wires.For wing folding, the actuation characteristics of the SMA wire actuator were modifiedthrough heat treatment.Through a series of flapping tests, we confirmed that the artificial wings did not fold back and arbitrarilyfluctuate during the flapping motion.

论Folding/Unfolding程序转换的能力

本文讨论Burstall与Darlington提出的folding/unfolding系统的程序转换能力,即讨论从一个给定的程序可以推导出什么样的程序。因此,这是正确性与完备性问题的推广。本文证明了可推导性的一个必要条件,并由此得到了该系统提高程序效率的一个界限。该系统的部分正确性和不完备性也均是该条件的推论。

A novel protein refolding method integrating ion exchange chromatography with artificial molecular chaperone

Artificial molecular chaperone （AMC） and ion exchange chromatography （IEC） were integrated, thus a new refolding method, artificial molecular chaperone-ion exchange chromatography （AMC-IEC） was developed. Compared with AMC and IEC, the activity recovery of lysozyme obtained by AMC-IEC was much higher in the investigated range of initial protein concentrations, and the results show that AMC-IEC is very efficient for protein refolding at high concentrations. When the initial concentration of lysozyme is 180 mg/mL, its activity recovery obtained by AMC-IEC is still as high as 76.6%, while the activity recoveries obtained by AMC and IEC are 45.6% and 42.4%, respectively.

Folding nucleus and unfolding dynamics of protein 2GB1

The folding of many small proteins is kinetically a two-state process with one major free-energy barrier to overcome,which can be roughly regarded as the inverse process of unfolding.In this work,we first use a Gaussian network model to predict the folding nucleus corresponding to the major free-energy barrier of protein 2 GB1,and find that the folding nucleus is located in theβ-sheet domain.High-temperature molecular dynamics simulations are then used to investigate the unfolding process of 2 GB1.We draw free-energy surface from unfolding simulations,taking RMSD and contact number as reaction coordinates,which confirms that the folding of 2 GB1 is kinetically a two-state process.The comparison of the contact maps before and after the free energy barrier indicates that the transition from native to non-native structure of the protein is kinetically caused by the destruction of theβ-sheet domain,which manifests that the folding nucleus is indeed located in theβ-sheet domain.Moreover,the constrained MD simulation further confirms that the destruction of the secondary structures does not alter the topology of the protein retained by the folding nucleus.These results provide vital information for upcoming researchers to further understand protein folding in similar systems.

Structure-activity correlationship and folding of recombinant Escherichia coli dihydro folate reductase (DHFR) enzyme through biochemical and biophysical approaches

The design of any antagonist or inhibitor for any enzyme requires the knowledge of structure- function relationship of the protein and the optimum conformational states for maximum and minimum activities. Furthermore, designing of the inhibitors or drugs against an enzyme becomes easier if there is information available about various well characterized intermediate conformation of the molecule. In vivo folding pathway of any recombinant protein is an important parameter for understanding its ability to fold by itself inside the cell, which always dictates the downstream processing for the purification. In the present manuscript we have discussed about the in vivo and in vitro folding, and structure-function relationship of Dihydrofolate reductase enzyme. This is an important enzyme involved in the cell growth and hence inhibition or inactivation of the enzyme may reduce the cell growth. It was observed that the equilibrium unfolding transition of DHFR proceeds through the formation of intermediates having higher exposed surface hydrophobicity, unchanged enzymatic activity and minimum changes in the secondary structural elements. Because of enhanced surface hydrophobicity, and unchanged enzymatic activity, these intermediates could be a nice target for designing drugs against DHFR.

Folding and Unfolding Simulations of a Three-Stranded Beta-Sheet Protein

Understanding the folding processes of a protein into its three-dimensional native structure only with its amino-acid sequence information is a long-standing challenge in modern science. Two- hundred independent folding simulations (starting from non-native conformations) and two- hundred independent unfolding simulations (starting from the folded native structure) are performed using the united-residue force field and Metropolis Monte Carlo algorithm for betanova (three-stranded antiparallel beta-sheet protein). From these extensive computer simulations, two representative folding pathways and two representative unfolding pathways are obtained in the reaction coordinates such as the fraction of native contacts, the radius of gyration, and the root- mean-square deviation. The folding pathways and the unfolding pathways are similar each other. The largest deviation between the folding pathways and the unfolding pathways results from the root-mean-square deviation near the folded native structure. In general, unfolding computer simulations could capture the essentials of folding simulations.

Structural Analysis of the Multi-layer Detachment Folding in Eastern Sichuan Province

A serial of＂comb-like and trough-like＂folds developed in eastern Sichuan,controlled by the multi-layer detachment folding,is different from the classical Jura-type structure in their development.The key factor resulting in the development of these structures is the occurrence of detachment layers in different parts of Neoprotozoic to Mesozoic stratigraphy of study area,which, from the bottom to the top,are the lower part of Banxi Group,Lower Cambrian（Niutitang Formation）,Lower Silurian（Longmaxi Formation and Luoreping Formation）,Upper Permian （Wujiaping Formation） and Lower Triassic（Daye Formation）.On the basis of field survey combined with sand-box modeling,this study argued that the detachment layer of the lower part of Banxi Group controlled the development of the＂comb-like＂folds,and the lower part of Cambrian detachment layer controlled the development of＂trough-like＂folds.Because of several detachment layers occurring in the study area,the development of duplex structures different scales is an important deformation mechanism,and the duplexes are the important structures distinguished from the typical detachment folding structures.Due to these duplexes,the surface structures and structural highs may not be the structural highs in the depth.Meanwhile,the detachment layers are good channels for oil/ gas migration benefiting the understanding of accumulation and migration of oil and gas.

Optimizing the Qusai-static Folding and Deploying of Thin-Walled Tube Flexure Hinges with Double Slots

The thin-walled tube flexure（TWTF） hinges have important potential application value in the deployment mechanisms of satellite and solar array, but the optimal design of the TWTF hinges haven＇t been completely solved, which restricts their applications. An optimal design method for the qusai-static folding and deploying of TWTF hinges with double slots is presented based on the response surface theory. Firstly, the full factorial method is employed to design of the experiments. Then, the finite element models of the TWTF hinges with double slots are constructed to simulate the qusai-static folding and deploying non-linear analysis. What＇s more, the mathematical model of the TWTF flexure hinge quasi-static folding and deploying properties are derived by the response surface method. Considering of small mass and high stability, the peak moment of quasi-static folding and deploying as well as the lightless are set as the objectives to get the optimal performances. The relative errors of the objectives between the optimal design results and the FE analysis results are less than 7%, which demonstrates the precision of the surrogate models. Lastly, the parameter study shows that both the slots length and the slots width both have significant effects to the peak moment of quasi-static folding and deploying of TWTF hinges with double slots. However, the maximum Mises stress of quasi-static folding is more sensitive to the slots length than the slots width. The proposed research can be applied to optimize other thin-walled flexure hinges under quasi-static folding and deploying, which is of great importance to design of flexure hinges with high stability and low stress.

Does mRNA structure contain genetic information for regulating co-translational protein folding？

Currently many facets of genetic information are illdefined. In particular, how protein folding is genetically regulated has been a long-standing issue for genetics and protein biology. And a generic mechanistic model with supports of genomic data is still lacking. Recent technological advances have enabled much needed genome-wide experiments. While putting the effect of codon optimality on debate, these studies have supplied mounting evidence suggesting a role of m RNA structure in the regulation of protein folding by modulating translational elongation rate. In conjunctions with previous theories, this mechanistic model of protein folding guided by m RNA structure shall expand our understandings of genetic information and offer new insights into various biomedical puzzles.

Folding beam-type piezoelectric phononic crystal with low-frequency and broad band gap

A folding beam-type piezoelectric phononic crystal model is proposed to isolate vibration. Two piezoelectric bimorphs are joined by two masses as a folding structure to comprise each unit cell of the piezoelectric phononic crystal. Each bimorph is connected independently by a resistive-inductive resonant shunting circuit. The folding structure extends the propagation path of elastic waves, while its structure size remains quite small. Propagation of coupled extension-flexural elastic waves is studied by the classical laminated beam theory and transfer matrix method. The theoretical model is further verified with the finite element method(FEM). The effects of geometrical and circuit parameters on the band gaps are analyzed. With only 4 unit cells, the folding beam-type piezoelectric phononic crystal generates two Bragg band gaps of 369 Hz to1 687 Hz and 2 127 Hz to 4 000 Hz. In addition, between these two Bragg band gaps, a locally resonant band gap is induced by resonant shunting circuits. Appropriate circuit parameters are used to join these two Bragg band gaps by the locally resonant band gap.Thus, a low-frequency and broad band gap of 369 Hz to 4 000 Hz is obtained.

Prediction of protein folding rates from primary sequence by fusing multiple sequential features

We have developed a web-server for predicting the folding rate of a protein based on its amino acid sequence information alone. The web- server is called Pred-PFR (Predicting Protein Folding Rate). Pred-PFR is featured by fusing multiple individual predictors, each of which is established based on one special feature derived from the protein sequence. The ensemble pre-dictor thus formed is superior to the individual ones, as demonstrated by achieving higher correlation coefficient and lower root mean square deviation between the predicted and observed results when examined by the jack-knife cross-validation on a benchmark dataset constructed recently. As a user-friendly web- server, Pred-PFR is freely accessible to the public at www.csbio.sjtu.edu.cn/bioinf/Folding Rate/.

Influence of Rice Genotypes on Folding and Spinning Behaviour of Leaffolder(Cnaphalocrocis medinalis) and Its Interaction with Leaf Damage

Folding and spinning behavior of Cnaphalocrocis medinalis （Guenee） （Lepidoptera： Pyralidae） in different categories of rice genotypes viz., resistant, susceptible, hybrid, scented, popular and wild rice genotypes were significantly different. Longer leaf selection time and folding time per primary fold; shorter primary fold and whole leaf fold; lower number of binds per primary fold and whole leaf fold were recorded in resistant and wild rice genotypes. In the correlation analysis, it was found that the leaf folding parameters were positively correlated to leaf folder damage whereas the leaf spinning parameters were negatively correlated. Similarly, the morphological characters differed significantly among the chosen genotypes and were related to leaffolder damage. The leaf width and total productive tiller number were positively correlated to leaffolder infestation. Results also indicated that the trichome density and length, leaf length and plant height might contribute to resistance whereas total number of green leaves had no effect on leaffolder infestation. In the scatter plot analysis between leaf folding and spinning characters and leaffolder damage, the genotypes were separated into four groups viz., resistant （TKM6, Ptb 33, LFR831311, Oryza rhizomatis and O. minuta）, moderately resistant （ASD16 and CORH1）, moderately susceptible （ADT36, Pusa Basmati and CB200290） and susceptible （IR36 and TN1）. The present investigation proved that the leaf morphology viz., leaf length and width, plant height and trichome density and length may play a vital role in resistance against rice leaffolder.

Respective Roles of Short-and Long-Range Interactions in Protein Folding

A new method was presented to discuss the respective roles of short- and long-range interactions in protein folding. It's based on an off-lattice model, which is also being called as toy model. Simulated annealing algorithm was used to search its native conformation. When it is applied to analysis proteins 1agt and 1aho, we find that helical segment cannot fold into native conformation without the influence of long-range interactions. That's to say that long-range interactions are the main determinants in protein folding. Key words toy model - protein folding - simulated annealing algorithm - short and long range interactions CLC number O 242.28 - Q71 Foundation item: Supported by the National Natural Science Foundation of China((60301009)Biography: WANG Long-hui (1976-), female, Ph. D candidate, research direction: machine learning, bioinformatics.

Study of the Geometry and Folding Pattern of Leaves of Mimosa pudica

Many structural and functional properties possessed by plants have great potentials to stimulate new concepts and innovative ideas in the field of biomimetic engineering. The key inputs from biology can be used for creation of efficient and optimized structures. The study of the geometry and folding pattern of leaves of Mimosa pudica, referred as Sensitive Plant, reveals some of the peculiar characteristics during folding and unfolding. When the leaf is touched, it quickly folds its leaflets and pinnae and droops downward at the petiole attachment. With the help of experiments on simulation model, the variations in angle of leaflets and degree of compaction after folding are investigated.

Equilibrium folding and unfolding dynamics to reveal detailed free energy landscape of src SH3 protein by magnetic tweezers

Src SH3 protein domain is a typical two-state protein which has been confirmed by research of denaturant-induced unfolding dynamics.Force spectroscopy experiments by optical tweezers and atomic force microscopy have measured the force-dependent unfolding rates with different kinds of pulling geometry.However,the equilibrium folding and unfolding dynamics at constant forces has not been reported.Here,using stable magnetic tweezers,we performed equilibrium folding and unfolding dynamic measurement and force-jump measurement of src SH3 domain with tethering points at its N-and C-termini.From the obtained force-dependent transition rates,a detailed two-state free energy landscape of src SH3 protein is constructed with quantitative information of folding free energy,transition state barrier height and position,which exemplifies the capability of magnetic tweezers to study protein folding and unfolding dynamics.