Multi-environment BSA-seq using large F3 populations is able to achieve reliable QTL mapping with high power and resolution: An experimental demonstration in rice

Bulked-segregant analysis by deep sequencing(BSA-seq) is a widely used method for mapping QTL(quantitative trait loci) due to its simplicity, speed, cost-effectiveness, and efficiency. However, the ability of BSA-seq to detect QTL is often limited by inappropriate experimental designs, as evidenced by numerous practical studies. Most BSA-seq studies have utilized small to medium-sized populations, with F2populations being the most common choice. Nevertheless, theoretical studies have shown that using a large population with an appropriate pool size can significantly enhance the power and resolution of QTL detection in BSA-seq, with F_(3)populations offering notable advantages over F2populations. To provide an experimental demonstration, we tested the power of BSA-seq to identify QTL controlling days from sowing to heading(DTH) in a 7200-plant rice F_(3)population in two environments, with a pool size of approximately 500. Each experiment identified 34 QTL, an order of magnitude greater than reported in most BSA-seq experiments, of which 23 were detected in both experiments, with 17 of these located near41 previously reported QTL and eight cloned genes known to control DTH in rice. These results indicate that QTL mapping by BSA-seq in large F_(3)populations and multi-environment experiments can achieve high power, resolution, and reliability.

Cold filament frontogenesis and frontolysis induced by thermal convection turbulence using large eddy simulation

The frontogenetic processes of a submesoscale cold filament driven by the thermal convection turbulence are studied by a non-hydrostatic large eddy simulation.The results show that the periodic changes in the direction of the cross-filament secondary circulations are induced by the inertial oscillation.The change in the direction of the secondary circulations induces the enhancement and reduction of the horizontal temperature gradient during the former and later inertial period,which indicates that the frontogenetical processes of the cold filament include both of frontogenesis and frontolysis.The structure of the cold filament may be broken and restored by frontogenesis and frontolysis,respectively.The magnitude of the down-filament currents has a periodic variation,while its direction is unchanged with time.The coupling effect of the turbulent mixing and the frontogenesis and frontolysis gradually weakens the temperature gradient of the cold filament with time,which reduces frontogenetical intensity and enlarges the width of cold filament.

The Turbulent Schmidt Number for Transient Contaminant Dispersion in a Large Ventilated Room Using a Realizable k-εModel

Buildings with large open spaces in which chemicals are handled are often exposed to the risk of explosions.Computational fluid dynamics is a useful and convenient way to investigate contaminant dispersion in such large spaces.The turbulent Schmidt number(Sc_(t))concept has typically been used in this regard,and most studies have adopted a default value.We studied the concentration distribution for sulfur hexafluoride(SF_(6))assuming different emission rates and considering the effect of Sc_(t).Then we examined the same problem for a light gas by assuming hydrogen gas(H_(2))as the contaminant.When SF_(6) was considered as the contaminant gas,a variation in the emission rate completely changed the concentration distribution.When the emission rate was low,the gravitational effect did not take place.For both low and high emission rates,an increase in S_(ct) accelerated the transport rate of SF_(6).In contrast,for H_(2) as the contaminant gas,a larger S_(ct) could induce a decrease in the H_(2) transport rate.

Multi-blade rubbing characteristics of the shaft-disk-blade-casing system with large rotation

Blade rubbing faults cause detrimental impact on the operation of aeroengines. Most of the existing studies on blade rubbing in the shaft-disk-blade-casing(SDBC) system have overlooked the elastic deformation of the blade, while some only consider the whirl of the rotor, neglecting its spin. To address these limitations, this paper proposes a dynamic model with large rotation for the SDBC system. The model incorporates the spin and whirl of the rotor, enabling the realistic reproduction of multiblade rubbing faults. To verify the accuracy of the SDBC model with large rotation and demonstrate its capability to effectively consider the rotational effects such as the centrifugal stiffening and gyroscopic effects, the natural characteristics and dynamic responses of the proposed model are compared with those obtained from reported research and experimental results. Furthermore, the effects of the rotating speed, contact stiffness,and blade number on the dynamic characteristics of the SDBC system with multi-blade rubbing are investigated. The results indicate that the phase angle between the rotor deflection and the unbalance excitation force increases with the increasing rotating speed,which significantly influences the rubbing penetration of each blade. The natural frequency of the SDBC system with rubbing constrain can be observed in the acceleration response of the casing and the torsional response of the shaft, and the frequency is related to the contact stiffness. Moreover, the vibration amplitude increases significantly with the product of the blade number under rubbing, and the rotating frequency approaches the natural frequency of the SDBC system. The proposed model can provide valuable insight for the fault diagnosis of rubbing in bladed rotating machinery.

Topology Optimization of Metamaterial Microstructures for Negative Poisson’s Ratio under Large Deformation Using a Gradient-Free Method

Negative Poisson’s ratio(NPR)metamaterials are attractive for their unique mechanical behaviors and potential applications in deformation control and energy absorption.However,when subjected to significant stretching,NPR metamaterials designed under small strain assumption may experience a rapid degradation in NPR performance.To address this issue,this study aims to design metamaterials maintaining a targeted NPR under large deformation by taking advantage of the geometry nonlinearity mechanism.A representative periodic unit cell is modeled considering geometry nonlinearity,and its topology is designed using a gradient-free method.The unit cell microstructural topologies are described with the material-field series-expansion(MFSE)method.The MFSE method assumes spatial correlation of the material distribution,which greatly reduces the number of required design variables.To conveniently design metamaterials with desired NPR under large deformation,we propose a two-stage gradient-free metamaterial topology optimization method,which fully takes advantage of the dimension reduction benefits of the MFSE method and the Kriging surrogate model technique.Initially,we use homogenization to find a preliminary NPR design under a small deformation assumption.In the second stage,we begin with this preliminary design and minimize deviations in NPR from a targeted value under large deformation.Using this strategy and solution technique,we successfully obtain a group of NPR metamaterials that can sustain different desired NPRs in the range of[−0.8,−0.1]under uniaxial stretching up to 20% strain.Furthermore,typical microstructure designs are fabricated and tested through experiments.The experimental results show good consistency with our numerical results,demonstrating the effectiveness of the present gradientfree NPR metamaterial design strategy.

Customized scaffolds for large bone defects using 3D‑printed modular blocks from 2D‑medical images

Additive manufacturing(AM)has revolutionized the design and manufacturing of patient-specific,three-dimensional(3D),complex porous structures known as scaffolds for tissue engineering applications.The use of advanced image acquisition techniques,image processing,and computer-aided design methods has enabled the precise design and additive manufacturing of anatomically correct and patient-specific implants and scaffolds.However,these sophisticated techniques can be timeconsuming,labor-intensive,and expensive.Moreover,the necessary imaging and manufacturing equipment may not be readily available when urgent treatment is needed for trauma patients.In this study,a novel design and AM methods are proposed for the development of modular and customizable scaffold blocks that can be adapted to fit the bone defect area of a patient.These modular scaffold blocks can be combined to quickly form any patient-specific scaffold directly from two-dimensional(2D)medical images when the surgeon lacks access to a 3D printer or cannot wait for lengthy 3D imaging,modeling,and 3D printing during surgery.The proposed method begins with developing a bone surface-modeling algorithm that reconstructs a model of the patient’s bone from 2D medical image measurements without the need for expensive 3D medical imaging or segmentation.This algorithm can generate both patient-specific and average bone models.Additionally,a biomimetic continuous path planning method is developed for the additive manufacturing of scaffolds,allowing porous scaffold blocks with the desired biomechanical properties to be manufactured directly from 2D data or images.The algorithms are implemented,and the designed scaffold blocks are 3D printed using an extrusion-based AM process.Guidelines and instructions are also provided to assist surgeons in assembling scaffold blocks for the self-repair of patient-specific large bone defects.

Microstructure and properties of 35 kg large aluminum alloy flywheel housing components formed by squeeze casting with local pressure compensation

The squeeze casting method with local pressure compensation was proposed to form a flywheel housing component with a weight of 35 kg.The numerical simulation,microstructure observation and phase characterization were performed,and the influence of local pressure compensation on feeding of thick-wall position,microstructure and mechanical properties of the formed components were discussed.Results show that the molten metal keeps a good fluidity and the filling is complete during the filling process.Although the solidification at thick-wall positions of the mounting ports is slow,the local pressure compensation effectively realizes the local forced feeding,significantly eliminating the shrinkage cavity defects.In the microstructure of AlSi9Mg alloy,α-Al primarily consists of fragmented dendrites and rosette grains,while eutectic Si predominantly comprises needles and short rods.The impact of local pressure compensation on strength is relatively minimal,yet its influence on elongation is considerable.Following local pressure compensation,the average elongation at the compensated areas is 9.18%,which represents a 44.90%higher than that before compensation.The average tensile strength is 209.1 MPa,and the average yield strength is 100.6 MPa.The local pressure compensation can significantly reduce or even eliminate the internal defects in the 35 kg large-weight components formed by squeeze casting.

Calculating real-time surface deformation for large active surface radio antennas using a graph neural network

This paper presents an innovative surrogate modeling method using a graph neural network to compensate for gravitational and thermal deformation in large radio telescopes.Traditionally,rapid compensation is feasible for gravitational deformation but not for temperature-induced deformation.The introduction of this method facilitates real-time calculation of deformation caused both by gravity and temperature.Constructing the surrogate model involves two key steps.First,the gravitational and thermal loads are encoded,which facilitates more efficient learning for the neural network.This is followed by employing a graph neural network as an end-to-end model.This model effectively maps external loads to deformation while preserving the spatial correlations between nodes.Simulation results affirm that the proposed method can successfully estimate the surface deformation of the main reflector in real-time and can deliver results that are practically indistinguishable from those obtained using finite element analysis.We also compare the proposed surrogate model method with the out-of-focus holography method and yield similar results.

Percutaneous antegrade management of large proximal ureteral stones using non-papillary puncture

Objective:To evaluate the feasibility and the safety of medial non-papillary percutaneous nephrolithotomy(npPCNL)for the management of large proximal ureteral stones.Methods:We evaluated prospectively collected data of 37 patients with large proximal ureteral stones more than 1.5 cm in diameter treated by prone npPCNL.Depending on stone size,in-toto stone removal or lithotripsy using the Lithoclast®Trilogy(EMS Medical,Nyon,Switzerland)was performed.Perioperative parameters including operative time(from start of puncture to the skin suturing),stone extraction time(from the first insertion of the nephroscope to the extraction of all stone fragments),and the stone-free rate were evaluated.Results:Twenty-one males and 16 females underwent npPCNL for the management of large upper ureteral calculi.The median age and stone size of treated patients were 58(interquartile range[IQR]:51-69)years and 19.3(IQR:18.0-22.0)mm,respectively.The median operative time and stone extraction time were 25(IQR:21-29)min and 8(IQR:7-10)min,respectively.One case(2.7%)of postoperative bleeding and two cases(5.4%)of prolonged fever were managed conservatively.The stone-free rate at a 1-month follow-up was 94.6%.Conclusion:The npPCNL provides a straight route to the ureteropelvic junction and proximal ureter.Approaching from a dilated portion of the ureter under low irrigation pressure with larger diameter instruments results in effective and safe stone extraction within a few minutes.

The environmental analysis and site selection of mussel and large yellow croaker aquaculture areas based on high resolution remote sensing

Mussel aquaculture and large yellow croaker aquaculture areas and their environmental characteristics in Zhoushan were analyzed using satellite data and in-situ surveys.A new two-step remote sensing method was proposed and applied to determine the basic environmental characteristics of the best mussel and large yellow croaker aquaculture areas.This methodology includes the first step of extraction of the location distribution and the second step of the extraction of internal environmental factors.The fishery ranching index(FRI1,FRI2)was established to extract the mussel and the large yellow croaker aquaculture area in Zhoushan,using Gaofen-1(GF-1)and Gaofen-6(GF-6)satellite data with a special resolution of 2 m.In the second step,the environmental factors such as sea surface temperature(SST),chlorophyll a(Chl-a)concentration,current and tide,suspended sediment concentration(SSC)in mussel aquaculture area and large yellow croaker aquaculture area were extracted and analyzed in detail.The results show the following three points.(1)For the extraction of the mussel aquaculture area,FRI1 and FRI2 are complementary,and the combination of FRI1 and FRI2 is suitable to extract the mussel aquaculture area.As for the large yellow croaker aquaculture area extraction,FRI2 is suitable.(2)Mussel aquaculture and the large yellow croaker aquaculture area in Zhoushan are mainly located on the side near the islands that are away from the eastern open waters.The water environment factor template suitable for mussel and large yellow croaker aquaculture was determined.(3)This two-step remote sensing method can be used for the preliminary screening of potential site selection for the mussels and large yellow croaker aquaculture area in the future.the fishery ranching index(FRI1,FRI2)in this paper can be applied to extract the mussel and large yellow croaker aquaculture areas in coastal waters around the world.

A high-contrast imaging coronagraph for segmented-mirror large aperture telescopes using a spatial light modulator

The primary mirrors of current and future large telescopes always employ a segmented mirror configuration.The small but non-negligible gaps between neighboring segments cause additional diffraction,which restricts the performance of high-contrast coronagraph.To solve this problem,we propose a coronagraph system based on a single liquid crystal spatial light modulator(SLM).This spatial light modulator is used for amplitude apodization,and its feasibility and potential performance are demonstrated using a laboratory setup using the stochastic parallel gradient descent(SPGD)algorithm to control the spatial light modulator,which is based on point spread function(PSF)sensing and evaluation and optimized for maximum contrast in the discovery working area as a merit function.The system delivers a contrast in the order of 10−6,and shows excellent potential to be used in current and future large aperture telescopes,both on the ground and in space.

Large Language Model Based Semantic Parsing for Intelligent Database Query Engine

With the rapid development of artificial intelligence, large language models (LLMs) have demonstrated remarkable capabilities in natural language understanding and generation. These models have great potential to enhance database query systems, enabling more intuitive and semantic query mechanisms. Our model leverages LLM’s deep learning architecture to interpret and process natural language queries and translate them into accurate database queries. The system integrates an LLM-powered semantic parser that translates user input into structured queries that can be understood by the database management system. First, the user query is pre-processed, the text is normalized, and the ambiguity is removed. This is followed by semantic parsing, where the LLM interprets the pre-processed text and identifies key entities and relationships. This is followed by query generation, which converts the parsed information into a structured query format and tailors it to the target database schema. Finally, there is query execution and feedback, where the resulting query is executed on the database and the results are returned to the user. The system also provides feedback mechanisms to improve and optimize future query interpretations. By using advanced LLMs for model implementation and fine-tuning on diverse datasets, the experimental results show that the proposed method significantly improves the accuracy and usability of database queries, making data retrieval easy for users without specialized knowledge.

Storyline Extraction of Document-Level Events Using Large Language Models

This article proposes a document-level prompt learning approach using LLMs to extract the timeline-based storyline. Through verification tests on datasets such as ESCv1.2 and Timeline17, the results show that the prompt + one-shot learning proposed in this article works well. Meanwhile, our research findings indicate that although timeline-based storyline extraction has shown promising prospects in the practical applications of LLMs, it is still a complex natural language processing task that requires further research.

A Single Mode980 nm In Ga As/Ga As/Al Ga As Large Optical Cavity Quantum Well Laser with Low Vertical Divergence Angle

To achieve high optical power as well as low vertical divergence angle,a new kind of optim ized large opti- cal cavity (L OC) structure is applied to a ridge waveguide 980 nm In Ga As/ Ga As/ Al Ga As m ulti- quantum well laser.The optical power density in the waveguide is successfully reduced.The maxim um output power is more than 40 0 m W with a slope efficiency of 0 .89W/ A and the far- field vertical divergence angle is lowered to 2 3°.

Clinical features and outcomes of diffuse large B-cell lymphoma based on nodal or extranodal primary sites of origin:Analysis of 1,085 WHO classified cases in a single institution in China

Objective: To explore the clinicobiologic features and outcomes of diffuse large B-cell lymphoma(DLBCL)patients in China according to the primary site.Methods: A total of 1,085 patients diagnosed with DLBCL in National Cancer Center/Cancer Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College during a 6-year period were enrolled. Their clinical characteristics and outcomes were analyzed according to the primary site.Results: In the 1,085 patients, 679(62.6%) cases were nodal DLBCL(N-DLBCL) and 406 cases(37.4%) were extranodal DLBCL(EN-DLBCL). The most common sites of N-DLBCL were lymphonodus(64.8%), Waldeyer's ring(19.7%), mediastinum(12.8%) and spleen(2.7%), while in EN-DLBCL, stomach(22.4%), intestine(16.0%),nose and sinuses(8.9%), testis(8.4%), skin(7.9%), thyroid(6.9%), central nervous system(CNS)(6.4%), breast(5.7%), bone(3.4%), and salivary gland(2.7%) were most common. N-DLBCL patients tend to present B symptoms, bulky disease, and elevated LDH more often, while age >60 years, extranodal sites >1, Ann Arbor stage I or II, bone marrow involvement, and Ki-67 index >90% were usually seen in EN-DLBCL. The 5-year overall survival(OS) rate and progression-free survival(PFS) rate for all patients were 62.5% and 54.2%. The 5-year OS rate for patients with N-DLBCL and EN-DLBCL were 65.5% and 56.9%(P=0.008), and the 5-year PFS were57.0% and 49.0%(P=0.020). Waldeyer's ring originated DLBCL possessed the highest 5-year OS rate(83.6%) and PFS rate(76.9%) in N-DLBCL. The top five EN-DLBCL subtypes with favorable prognosis were stomach,breast, nose and sinuses, lung, salivary gland, with 5-year OS rate: 70.3%, 69.6%, 69.4%, 66.7% and 63.6%,respectively. While CNS, testis, oral cavity and kidney originated EN-DLBCL faced miserable prognosis, with 5-year OS rate of 26.9%, 38.2%, and 42.9%.Conclusions: In our study, primary sites were associated with clinical characteristics and outcomes. Compared with EN-DLBCL, N-DLBCL had better prognosis.

Growth of Large Single Crystals of Nitrogenase CrFe Protein and MnFe Protein

By using the liquid/liquid diffusion method at a suitable crystallization conditions, large single and dark brown crystals (the sides of the largest crystals were 0.20 mm x 0.20 mm x 0.07 min and 0.18 mm x 0.18 mm x 0.05 mm, respectively) could be obtained from the solutions of nitrogenase CrFe protein and MnFe protein purified from a mutant UW3 of Azotobacter vinelandii Lipmarm grown in Cr- or Mn-containing but NH3-free medium. The time of crystal formation, as well as the number, size, shape and quality of crystals obviously depended on the concentrations of PEG, MgCl2 and NaCl. The liquid/liquid diffusion method seems to benefit CrFe protein and MnFe protein for the growth of large single crystals for X-ray diffraction analysis.

Inclusions in large diamond single crystals at different temperatures of synthesis

The inclusions in large diamond single crystals have effects on its ultimate performance, which restricts its industrial applications to a great extent. Therefore, it is necessary to study the inclusions systematically. In this paper, large diamond single crystals with different content values of inclusions are synthesized along the(100) surface by the temperature gradient method(TGM) under 5.6 GPa at different temperatures. With the synthetic temperature changing from 1200?C to 1270?C,the shapes of diamonds change from plate to low tower, to high tower, even to steeple. From the microscopic photographs of the diamond samples, it can be observed that with the shapes of the samples changing at different temperatures, the content values of inclusions in diamonds become zero, a little, much and most, correspondingly. Consequently, with the temperature growing from low to high, the content values of inclusions in crystals increase. The origin of inclusions is explained by the difference in growth rate between diamond crystal and its surface. The content values of inclusions in diamond samples are quantitatively calculated by testing the densities of diamond samples. And the composition and inclusion content are analyzed by energy dispersive spectroscopy(EDS) and x-ray diffraction(XRD). From contrasting scanning electron microscopy(SEM) photographs, it can be found that the more the inclusions in diamond, the more imperfect the diamond surface is.

A large eddy simulation of flows around an underwater vehicle model using an immersed boundary method

A large eddy simulation （LES） of the flows around an underwater vehicle model at intermediate Reynolds numbers is performed. The underwater vehicle model is taken as the DARPA SUBOFF with full appendages, where the Reynolds number based on the hull length is 1.0x 105, An immersed boundary method based on the moving-least-squares reconstruction is used to handle the complex geometric boundaries. The adaptive mesh refinement is utilized to resolve the flows near the hull, The parallel scalabilities of the flow solver are tested on meshes with the number of cells varying from 50 million to 3.2 billion, The parallel solver reaches nearly linear scalability for the flows around the underwater vehicle model, The present simulation captures the essential features of the vortex structures near the hull and in the wake, Both of the time-averaged pressure coefficients and srreamwise velocity profiles obtained from the LES are consistent with the characteristics of the flows pass an appended axisymmetric body. The code efficiency and its correct predictions on flow features allow us to perform the full-scale simulations on tens of thousands of cores with billions of grid points for higher-Reynolds-number flows around the underwater vehicles.

Swirling-strength based large eddy simulation of turbulent flow around single square cylinder at low Reynolds numbers

In view of the fact that large scale vortices play the substantial role of momentum transport in turbulent flows, large eddy simulation （LES） is considered as a better simulation model. However, the sub-grid scale （SGS） models reported so far have not ascertained under what flow conditions the LES can lapse into the direct nu-merical simulation. To overcome this discrepancy, this paper develops a swirling strength based the SGS model to properly model the turbulence intermittency, with the primary characteristics that when the local swirling strength is zero, the local sub-grid viscosity will be vanished. In this paper, the model is used to investigate the flow characteris-tics of zero-incident incompressible turbulent flows around a single square cylinder （SC） at a low Reynolds number range Re ∈ [103, 104]. The flow characteristics investigated include the Reynolds number dependence of lift and drag coefficients, the distributions of time-spanwise averaged variables such as the sub-grid viscosity and the logarithm of Kolmogorov micro-scale to the base of 10 at Re=2 500 and 104, the contours of spanwise and streamwise vorticity components at t = 170. It is revealed that the peak value of sub-grid viscosity ratio and its root mean square （RMS） values grow with the Reynolds number. The dissipation rate of turbulent kinetic energy is larger near the SC solid walls. The instantaneous factor of swirling strength intermittency （FSI） exhibits some laminated structure involved with vortex shedding.

Large Scale VLSI Module Placement Using LFF Heuristics by Stages

We present a deterministic algorithm for large-scale VLSI module placement. Following the less flexibility first （LFF） principle,we simulate a manual packing process in which the concept of placement by stages is introduced to reduce the overall evaluation complexity. The complexity of the proposed algorithm is （N1 ＋ N2 ） × O（ n^2 ） ＋ N3× O（n^4lgn） ,where N1, N2 ,and N3 denote the number of modules in each stage, N1 ＋ N2 ＋ N3 = n, and N3〈〈 n. This complexity is much less than the original time complexity of O（n^5lgn）. Experimental results indicate that this approach is quite promising.