Data science allows the extraction of practical insights from large-scale data. Here, we contextualize it as an umbrella term, encompassing several disparate subdomains. We focus on how genomics fits ...as a specific application subdomain, in terms of well-known 3 V data and 4 M process frameworks (volume-velocity-variety and measurement-mining-modeling-manipulation, respectively). We further analyze the technical and cultural "exports" and "imports" between genomics and other data-science subdomains (e.g., astronomy). Finally, we discuss how data value, privacy, and ownership are pressing issues for data science applications, in general, and are especially relevant to genomics, due to the persistent nature of DNA.
One favorable situation for spins to enter the long-sought quantum spin liquid (QSL) state is when they sit on a kagome lattice. No consensus has been reached in theory regarding the true ground ...state of this promising platform. The experimental efforts, relying mostly on one archetypal material ZnCu_{3}(OH)_{6}Cl_{2}, have also led to diverse possibilities. Apart from subtle interactions in the Hamiltonian, there is the additional degree of complexity associated with disorder in the real material ZnCu_{3}(OH)_{6}Cl_{2} that haunts most experimental probes. Here we resort to heat transport measurement, a cleaner probe in which instead of contributing directly, the disorder only impacts the signal from the kagome spins. For ZnCu_{3}(OH)_{6}Cl_{2}, we observed no contribution by any spin excitation nor obvious field-induced change to the thermal conductivity. These results impose strong constraints on various scenarios about the ground state of this kagome compound: while certain quantum paramagnetic states other than a QSL may serve as natural candidates, a QSL state, gapless or gapped, must be dramatically modified by the disorder so that the kagome spin excitations are localized.
A few recent developments have demonstrated that deep-learning-based solutions can outperform traditional algorithms for automated pavement crack detection. In this paper, an efficient deep network ...called CrackNet-V is proposed for automated pixel-level crack detection on 3D asphalt pavement images. Compared with the original CrackNet, CrackNet-V has a deeper architecture but fewer parameters, resulting in improved accuracy and computation efficiency. Inspired by CrackNet, CrackNet-V uses invariant spatial size through all layers such that supervised learning can be conducted at pixel level. Following the VGG network, CrackNet-V uses 3 × 3 size of filters for the first six convolutional layers and stacks several 3 × 3 convolutional layers together for deep abstraction, resulting in reduced number of parameters and efficient feature extraction. CrackNet-V has 64113 parameters and consists of ten layers, including one pre-process layer, eight convolutional layers, and one output layer. A new activation function leaky rectified tanh is proposed in this paper for higher accuracy in detecting shallow cracks. The training of CrackNet-V was completed after 3000 iterations, which took only one day on a GeForce GTX 1080Ti device. According to the experimental results on 500 testing images, CrackNet-V achieves a high performance with a Precision of 84.31%, Recall of 90.12%, and an F-1 score of 87.12%. It is shown that CrackNet-V yields better overall performance particularly in detecting fine cracks compared with CrackNet. The efficiency of CrackNet-V further reveals the advantages of deep learning techniques for automated pixel-level pavement crack detection.
Bats are a unique group of mammals of the order
. They are highly diversified and are the group of mammals with the second largest number of species. Such highly diversified cell types and receptors ...facilitate them to be potential hosts of a large variety of viruses. Bats are the only group of mammals capable of sustained flight, which enables them to disseminate the viruses they harbor and enhance the chance of interspecies transmission. This article aims at reviewing the various aspects of the global epidemiology of bat coronaviruses (CoVs). Before the SARS epidemic, bats were not known to be hosts for CoVs. In the last 15 years, bats have been found to be hosts of >30 CoVs with complete genomes sequenced, and many more if those without genome sequences are included. Among the four CoV genera, only alphaCoVs and betaCoVs have been found in bats. As a whole, both alphaCoVs and betaCoVs have been detected from bats in Asia, Europe, Africa, North and South America and Australasia; but alphaCoVs seem to be more widespread than betaCoVs, and their detection rate is also higher. For betaCoVs, only those from subgenera
,
,
and
have been detected in bats. Most notably, horseshoe bats are the reservoir of SARS-CoV, and several betaCoVs from subgenus
are closely related to MERS-CoV. In addition to the interactions among various bat species themselves, bat⁻animal and bat⁻human interactions, such as the presence of live bats in wildlife wet markets and restaurants in Southern China, are important for interspecies transmission of CoVs and may lead to devastating global outbreaks.
Highlights • TBI is associated with a greater occurrence of FTD. • TBI increased TDP-43 proteolysis in rats. • TBI induced impaired behaviors that were associated with TDP-43 and its fragments.
We present a multiwavelength morphological analysis of star-forming clouds and filaments in the central (≲50 kpc) regions of 16 low-redshift (z < 0.3) cool core brightest cluster galaxies. New Hubble ...Space Telescope imaging of far-ultraviolet continuum emission from young (≲10 Myr), massive (≳5 M⊙) stars reveals filamentary and clumpy morphologies, which we quantify by means of structural indices. The FUV data are compared with X-ray, Lyα, narrow-band Hα, broad-band optical/IR, and radio maps, providing a high spatial resolution atlas of star formation locales relative to the ambient hot (∼107–8 K) and warm ionized (∼104 K) gas phases, as well as the old stellar population and radio-bright active galactic nucleus (AGN) outflows. Nearly half of the sample possesses kpc-scale filaments that, in projection, extend towards and around radio lobes and/or X-ray cavities. These filaments may have been uplifted by the propagating jet or buoyant X-ray bubble, or may have formed in situ by cloud collapse at the interface of a radio lobe or rapid cooling in a cavity's compressed shell. The morphological diversity of nearly the entire FUV sample is reproduced by recent hydrodynamical simulations in which the AGN powers a self-regulating rain of thermally unstable star-forming clouds that precipitate from the hot atmosphere. In this model, precipitation triggers where the cooling-to-free-fall time ratio is t
cool/t
ff ∼ 10. This condition is roughly met at the maximal projected FUV radius for more than half of our sample, and clustering about this ratio is stronger for sources with higher star formation rates.
Abstract Background This study aimed to compare the outcomes of single-incision laparoscopic cholecystectomy (SILC) versus conventional 4-port laparoscopic cholecystectomy (LC). Methods From November ...2009 to August 2010, 51 patients with symptomatic gallstone or gallbladder polyps were randomized to SILC (n = 24) or 4-port LC (n = 27). Results Mean surgical time (43.5 vs 46.5 min), median blood loss (1 vs 1 mL) and mean hospital stay (1.5 vs 1.8 d) were similar for both the SILC and 4-port LC group. There were no open conversions and no major complications. The mean total wound length of the SILC group was significantly shorter (1.76 vs 2.25 cm). The median visual analogue pain score at 6 hours after surgery was similar (4.5 vs 4.0) but the SILC group had a significantly worse pain score on day 7 (1 vs 0). There was no difference in time to resume usual activity (mean, 5.6 vs 5.0 d). The median cosmetic score of SILC was significantly higher than at 3 months after surgery (7 vs 6). Conclusions SILC was feasible and safe for properly selected patients in experienced hands.
While a number of human coronaviruses are believed to be originated from ancestral viruses in bats, it remains unclear if bat coronaviruses are ready to cause direct bat-to-human transmission. Here, ...we report the isolation of a MERS-related coronavirus, Tylonycteris-bat-CoV-HKU4, from lesser bamboo bats. Tylonycteris-bat-CoV-HKU4 replicates efficiently in human colorectal adenocarcinoma and hepatocarcinoma cells with cytopathic effects, and can utilize human-dipeptidyl-peptidase-4 and dromedary camel-dipeptidyl-peptidase-4 as the receptors for cell entry. Flow cytometry, co-immunoprecipitation and surface plasmon resonance assays show that Tylonycteris-bat-CoV-HKU4-receptor-binding-domain can bind human-dipeptidyl-peptidase-4, dromedary camel-dipeptidyl-peptidase-4, and Tylonycteris pachypus-dipeptidyl-peptidase-4. Tylonycteris-bat-CoV-HKU4 can infect human-dipeptidyl-peptidase-4-transgenic mice by intranasal inoculation with self-limiting disease. Positive virus and inflammatory changes were detected in lungs and brains of infected mice, associated with suppression of antiviral cytokines and activation of proinflammatory cytokines and chemokines. The results suggest that MERS-related bat coronaviruses may overcome species barrier by utilizing dipeptidyl-peptidase-4 and potentially emerge in humans by direct bat-to-human transmission.
A novel database search algorithm is presented for the qualitative identification of proteins over a wide dynamic range, both in simple and complex biological samples. The algorithm has been designed ...for the analysis of data originating from data independent acquisitions, whereby multiple precursor ions are fragmented simultaneously. Measurements used by the algorithm include retention time, ion intensities, charge state, and accurate masses on both precursor and product ions from LC-MS data. The search algorithm uses an iterative process whereby each iteration incrementally increases the selectivity, specificity, and sensitivity of the overall strategy. Increased specificity is obtained by utilizing a subset database search approach, whereby for each subsequent stage of the search, only those peptides from securely identified proteins are queried. Tentative peptide and protein identifications are ranked and scored by their relative correlation to a number of models of known and empirically derived physicochemical attributes of proteins and peptides. In addition, the algorithm utilizes decoy database techniques for automatically determining the false positive identification rates. The search algorithm has been tested by comparing the search results from a four-protein mixture, the same four-protein mixture spiked into a complex biological background, and a variety of other "system" type protein digest mixtures. The method was validated independently by data dependent methods, while concurrently relying on replication and selectivity. Comparisons were also performed with other commercially and publicly available peptide fragmentation search algorithms. The presented results demonstrate the ability to correctly identify peptides and proteins from data independent acquisition strategies with high sensitivity and specificity. They also illustrate a more comprehensive analysis of the samples studied; providing approximately 20% more protein identifications, compared to a more conventional data directed approach using the same identification criteria, with a concurrent increase in both sequence coverage and the number of modified peptides.
Inconel 718 superalloy was fabricated by selective laser melting (SLM) and subsequently subjected to different heat treatments. Microstructure evolution was examined by X-ray diffraction, optical ...microscopy, scanning and transmission electron microscopies. In the horizontal section (normal to the building direction) of the as-built sample, columnar and cellular sub-structures formed in the overlapping area, while only cellular sub-structures existed in the central fusion area. Columnar structures were observed in the vertical section (parallel to the building direction). In the as-built condition, austenite γ and Laves phases predominated, almost to the exclusion of all other phases. When treated by the direct double aging (DA) process, δ-Ni3Nb phases precipitated mainly in the interdendritic regions where Nb preferentially segregated. Homogenization plus double aging (HA), and solution plus double aging (SA) treatments significantly eliminated microsegregation and Laves phases owing to the diffusion of Nb and Ti to the γ matrix. The δ phase dissolved in the HA-treated sample but precipitated in the SA-treated sample. The γ′-Ni3(Al,Ti) phase was prone to precipitate when treated by HA, while γ″-Ni3Nb phase tended to precipitate in the SA sample. Due to the precipitation of the higher fraction of the major strengthening γ″ phases, the SA sample showed the highest hardness value among the as-built, DA, HA, and SA samples. The morphology, distribution and crystallography of precipitates and their formation mechanisms are discussed and analyzed.
Display omitted
•Heat treatments affected the precipitation behaviors of γ′, γ″ and δ phases.•The orientation relationships of γ′, γ″ with γ, and of δ with γ were observed.•The hardness increased as the volume fraction of γ″ increased.
PDF
