Critical study of parallel programming frameworks for distributed applications

Parallel programming frameworks such as the Message Passing Interface (MPI), Partitioned Global Address Space (PGAS) languages, Charm++, Legion and High Performance Parallel X (HPX) have been used in several scientific domains -- such as bioinformatics, physics, chemistry, and others -- to implement distributed applications. These frameworks allow distributing data and computation across the different nodes (or machines) of a high-performance computing cluster. However, these frameworks differ in their programmability, performance, and suitability to different cluster settings. For example, some of these frameworks have been designed to support applications running on homogeneous clusters that include only general purpose CPUs, while others offer support for heterogeneous clusters that include accelerators, such as graphics processing units (GPUs). Hence, it is important for programmers to select the programing framework that is best suited to the characteristics of their application (i.e. its computation and communication patterns) and the hardware setup of the target high-performance computing cluster

An easy approach to control β-phase formation in PFO films for optimized emission properties

We demonstrate a novel approach to control β-phase content generated in poly(9,9-dioctylfluorene) (PFO) films. A very small amount of paraffin oil was used as the additive to the PFO solution in toluene. The β-phase fraction in the spin-coated PFO films can be modified from 0% to 20% simply by changing the volume percentage of paraffin oil in the mixed solution. Organic light emitting diodes (OLEDs) and amplified spontaneous emission (ASE) study confirmed low β-phase fraction promise better OLEDs device, while high β-phase fraction benefits ASE performance

Influenza A virus preferentially snatches noncoding RNA caps

Influenza A virus (IAV) lacks the enzyme for adding 5\u27 caps to its RNAs and snatches the 5\u27 ends of host capped RNAs to prime transcription. Neither the preference of the host RNA sequences snatched nor the effect of cap-snatching on host processes is completely defined. Previous studies of influenza cap-snatching used poly(A)-selected RNAs from infected cells or relied on annotated host genes to define the snatched host RNAs, and thus lack details on many noncoding host RNAs including snRNAs, snoRNAs, and promoter-associated capped small (cs)RNAs, which are made by paused Pol II during transcription initiation. In this study, we used a nonbiased technique, CapSeq, to identify host and viral-capped RNAs including nonpolyadenylated RNAs in the same samples, and investigated the substrate-product correlation between the host RNAs and the viral RNAs. We demonstrated that noncoding host RNAs, particularly U1 and U2, are the preferred cap-snatching source over mRNAs or pre-mRNAs. We also found that csRNAs are highly snatched by IAV. Because the functions of csRNAs remain mostly unknown, especially in somatic cells, our finding reveals that csRNAs at least play roles in the process of IAV infection. Our findings support a model where nascent RNAs including csRNAs are the preferred targets for cap-snatching by IAV and raise questions about how IAV might use snatching preferences to modulate host-mRNA splicing and transcription

Observation of plateau regions for zero bias peaks within 5% of the quantized conductance value 2e2/h2e^2/h

Probing an isolated Majorana zero mode is predicted to reveal a tunneling conductance quantized at $2e^2/h$ at zero temperature. Experimentally, a zero-bias peak (ZBP) is expected and its height should remain robust against relevant parameter tuning, forming a quantized plateau. Here, we report the observation of large ZBPs in a thin InAs-Al hybrid nanowire device. The ZBP height can stick close to $2e^2/h$, mostly within 5% tolerance, by sweeping gate voltages and magnetic field. We further map out the phase diagram and identify two plateau regions in the phase space. Our result constitutes a step forward towards establishing Majorana zero modes.Comment: Raw data and processing codes within this paper are available at https://doi.org/10.5281/zenodo.654697

Neuromatch Academy: a 3-week, online summer school in computational neuroscience

Neuromatch Academy (https://academy.neuromatch.io; (van Viegen et al., 2021)) was designed as an online summer school to cover the basics of computational neuroscience in three weeks. The materials cover dominant and emerging computational neuroscience tools, how they complement one another, and specifically focus on how they can help us to better understand how the brain functions. An original component of the materials is its focus on modeling choices, i.e. how do we choose the right approach, how do we build models, and how can we evaluate models to determine if they provide real (meaningful) insight. This meta-modeling component of the instructional materials asks what questions can be answered by different techniques, and how to apply them meaningfully to get insight about brain function

A Study of Hydrogen Embrittlement of SA-372 J Class High Pressure Hydrogen Storage Seamless Cylinder (≥100 MPA)

The spinning process will lead to changes in the micro-structure and mechanical properties of the materials in different positions of the high-pressure hydrogen storage cylinder, which will show different hydrogen embrittlement resistance in the high-pressure hydrogen environment. In order to fully study the safety of hydrogen storage in large-volume seamless steel cylinders, this chapter associates the influence of the forming process with the deterioration of a high-pressure hydrogen cylinder (≥100 MPa). The anti-hydrogen embrittlement of SA-372 grade J steel at different locations of the formed cylinders was studied experimentally in three cylinders. The hydrogen embrittlement experiments were carried out according to method A of ISO 11114-4:2005. The relationship between tensile strength, microstructure, and hydrogen embrittlement is analyzed, which provides comprehensive and reliable data for the safety of hydrogen storage and transmission

Numerical investigation of silted-up dam-break flow with different silted-up sediment heights

The silted-up sediment in the reservoir may have a significant influence on the propagation of dam-break flows. In this paper, a three-dimensional numerical simulation of the silted-up dam-break flow is carried out. In this paper, simulations of three-dimensional silted-up dam-break flow are carried out. A kind of Eulerian–Eulerian two-fluid model (TFM), coupled level set and volume of fluid (CLSVOF) methods, is presented. In order to calculate the motions of the air–water interface and the sediment simultaneously, kinetic particle theory (KPT) and computational fluid dynamics (CFD) are combined. The rheology-based constitutive equations of sediment are also considered to simulate scouring and deposition. In addition, a partial-slip boundary condition (BC) for the velocity of the sediment phase at stationary walls is implemented. The simulation results of the benchmark case demonstrate that the proposed model can effectively simulate the silted-up dam-break flow while taking into account multi-interface capturing problems. Subsequently, the simulations of the silted-up dam-break flow over dry are investigated numerically in a three-dimensional long channel. The simulated results reveal that, in the dam-break flows, the silted-up sediment height has a significant influence on wave propagation, dynamic pressure loads, sediment transport, and sediment deposition. HIGHLIGHTS Three-dimensional simulation of silted-up dam-break flow is carried out.; The air–water interface movement is captured by CLSVOF method.; A Eulerian–Eulerian multiphase model coupling kinetic particle theory and computational fluid dynamics is used.; The rheology-based constitutive equations of sediment are considered.; The effect of the silted-up sediment height during a dam-break flow is investigated.

Transcriptomic Profiling of Meat Quality Traits of Skeletal Muscles of the Chinese Indigenous Huai Pig and Duroc Pig

The Huai pig is a well-known indigenous pig breed in China. The main advantages of Huai pigs over Western commercial pig breeds include a high intramuscular fat (IMF) content and good meat quality. There are significant differences in the meat quality traits of the same muscle part or different muscle parts of the same variety. To investigate the potential genetic mechanism underlying the meat quality differences in different pig breeds or muscle groups, longissimus dorsi (LD), psoas major (PM), and biceps femoris (BF) muscle tissues were collected from two pig breeds (Huai and Duroc). There were significant differences in meat quality traits and amino acid content. We assessed the muscle transcriptomic profiles using high-throughput RNA sequencing. The IMF content in the LD, PM, and BF muscles of Huai pigs was significantly higher than that in Duroc pigs (p p < 0.05). We identified 175, 110, and 86 differentially expressed genes (DEGs) between the LD, PM, and BF muscles of the Huai and Duroc pigs, respectively. The DEGs of the different pig breeds and muscle regions were significantly enriched in the biological processes and signaling pathways related to muscle fiber type, IMF deposition, lipid metabolism, PPAR signaling, cAMP signaling, amino acid metabolism, and ECM–receptor interaction. Our findings might help improve pork yield by using the obtained DEGs for marker-assisted selection and providing a theoretical reference for evaluating and improving pork quality