In response to the emergence of SARS-CoV-2 variants of concern, the global scientific community, through unprecedented effort, has sequenced and shared over 11 million genomes through GISAID, as of ...May 2022. This extraordinarily high sampling rate provides a unique opportunity to track the evolution of the virus in near real-time. Here, we present outbreak.info , a platform that currently tracks over 40 million combinations of Pango lineages and individual mutations, across over 7,000 locations, to provide insights for researchers, public health officials and the general public. We describe the interpretable visualizations available in our web application, the pipelines that enable the scalable ingestion of heterogeneous sources of SARS-CoV-2 variant data and the server infrastructure that enables widespread data dissemination via a high-performance API that can be accessed using an R package. We show how outbreak.info can be used for genomic surveillance and as a hypothesis-generation tool to understand the ongoing pandemic at varying geographic and temporal scales.
STAM-binding protein-like 1 (STAMBPL1) functions as a deubiquitinase to cleave Lys63 ubiquitin linkage, and is associated with cancer dissemination and progression. The role of STAMBPL1 in colorectal ...cancer (CRC) remains unclear.
STAMBPL1 expression was determined by western blot and qRT-PCR. Cell proliferation was detected by colony formation and MTT assays, and apoptosis was assessed by flow cytometry. The metastasis was evaluated by transwell and wound healing assays. An animal xenograft experiment was used to investigate the effect of STAMBPL1 on tumor growth.
The expression of STAMBPL1 was elevated in CRC cells. Knockdown of STAMBPL1 reduced cell viability of CRC and suppressed the proliferation, invasion, and migration. Apoptosis of CRC was induced by silence of STAMBPL1. Tumor growth of CRC was also suppressed by the silence of STAMBPL1. Knockdown of STAMBPL1 increased IκB and decreased phosphorylation of IκB to reduce p65 phosphorylation.
Knockdown of STAMBPL1 inhibited cell growth and metastasis of CRC through inactivation of the NF-κB pathway.
Shallow-water depth information is essential for ship navigation and fishery farming. However, the accurate acquisition of shallow-water depth has been a challenge for marine mapping. Combining Ice, ...Cloud, and Land Elevation Satellite-2 (ICESat-2) bathymetry data with multispectral data, satellite-derived bathymetry is a promising solution through which to obtain bathymetric information quickly and accurately. This study proposes a photon refraction correction method considering sea-surface undulations to address errors in the underwater photons obtained by the ICESat-2. First, the instantaneous sea surface and beam emission angle are integrated to determine the sea-surface incidence angle. Next, the distance of photon propagation in water is determined using sea-surface undulation and Snell’s law. Finally, position correction is performed through geometric relationships. The corrected photons were combined with the multispectral data for bathymetric inversion, and a bathymetric map of the Yongle Atoll area was obtained. A bathymetric chart was created using the corrected photons and the multispectral data in the Yongle Atoll. Comparing the results of different refraction correction methods with the data measured shows that the refraction correction method proposed in this paper can effectively correct bathymetry errors: the root mean square error is 1.48 m and the R2 is 0.86.
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The inversion method based on the reflection loss-grazing angle curve is an effective tool to obtain local underwater acoustic parameters. Because geoacoustic parameters vary in sensitivity to ...grazing angle, it is difficult to get accurate results in geoacoustic parameter inversion based on small-grazing-angle data in shallow water. In addition, the normal-mode model commonly used in geoacoustic parameter inversion fails to meet the needs of accurate local sound field simulation as the influence of the secant integral is ignored. To solve these problems, an acoustic data acquisition scheme was rationally designed based on a sparker source, a fixed vertical array, and ship drifting with the swell, which could balance the trade-off among signal transmission efficiency and signal stability, and the actual local acoustic data at low-to-mid frequencies were acquired at wide grazing angles in the South Yellow Sea area. Furthermore, the bottom reflection coefficients (bottom reflection losses) corresponding to different grazing angles were calculated based on the wavenumber integration method. The local seafloor sediment parameters were then estimated using the genetic algorithm and the bottom reflection loss curve with wide grazing angles, obtaining more accurate local acoustic information. The seafloor acoustic velocity inverted is cp=1659 m/s and the sound attenuation is αp=0.656 dB/λ in the South Yellow Sea. Relevant experimental results indicate that the method described in this study is feasible for local inversion of geoacoustic parameters for seafloor sediments. Compared with conventional large-scale inversion methods, in areas where there are significant changes in the seabed sediment level, this method can obtain more accurate local acoustic features within small-scale areas.
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High-amylose cereal starch has a great benefit on human health through its resistant starch content. In this paper, starches were isolated from mature grains of high-amylose transgenic rice line ...(TRS) and its wild-type rice cultivar Te-qing (TQ) and digested in vitro and in vivo. The structural changes of digestive starch residues were characterized using DSC, XRD, 13C CP/MAS NMR, and ATR-FTIR. TQ starch was very susceptible to digestion; its residues following in vitro and in vivo digestion showed similar structural characteristics with TQ control starch, which suggested that both amorphous and crystalline structures were simultaneously digested. Both amorphous and the long-range order structures were also simultaneously hydrolyzed in TRS starch, but the short-range order (double helix) structure in the external region of TRS starch granule increased with increasing digestion time. The A-type polymorph of TRS C-type starch was hydrolyzed more rapidly than the B-type polymorph. These results suggested that B-type crystallinity and short-range order structure in the external region of starch granule made TRS starch resistant to digestion.
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Ocean tides in polar regions play an important role in the study of sea ice dynamics and floating ice shelves. The accuracy of existing ocean tide models in shallow waters and polar seas is much ...lower than that in open deep oceans. This study summarized the advances of state-of-the-art global tide models in the Antarctic Ocean, the construction of tide models around Circum-Antarctica, and five typical regions: Antarctic Peninsula, Ross Sea, Filchner–Ronne Ice Shelf (FRIS), Weddell Sea, and Amery Ice Shelf (AIS). The accuracy of FES 2014, TPXO9, EOT20, CATS 2008, and regional tide models in the Antarctic Ocean and typical areas was evaluated using tidal records and satellite altimetry data. EOT20 and ANTPEN04.01 models have higher accuracy in the Antarctic Peninsula, and the root sum square (RSS) values are 8.29 and 7.46 cm, respectively. TPXO9 has the highest accuracy in the Weddell Sea and FRIS and AIS and RSS values are 18.33 and 12.77 cm, respectively. TPXO9 and RIS_Optimal models have higher accuracy in the Ross Sea and Ross Ice Shelf (RIS), RSS values are 5.62 and 6.21 cm, respectively. The accuracy of FES 2014, TPXO9, CATS 2008, and the regional tide model in the Drake Passage, Kerguelen Islands, and Adelie–Mertz was evaluated using satellite altimetry data. The RSS values are less than 4 cm. By using the altimetry data at Sentinel-3A single-satellite crossovers in terms of the STD of the SLA, the comparison of the STDs show that FES2014 is the best.
Atherosclerosis is a chronic inflammatory disease characterized by a massive intimal accumulation of low-density lipoprotein that triggers chronic vascular inflammation with an autoimmune response to ...low-density lipoprotein components.
To dampen the inflammatory component of atherosclerosis, we injected hypercholesterolemic huB100(tg) × Ldlr(-/-) mice (mice transgenic for human apolipoprotein B100 ApoB100 and deficient for the low-density lipoprotein receptor) intravenously with dendritic cells (DCs) that had been pulsed with the low-density lipoprotein protein ApoB100 in combination with the immunosuppressive cytokine interleukin-10. DCs treated with ApoB100 and interleukin-10 reduced proliferation of effector T cells, inhibited production of interferon-γ, and increased de novo generation of regulatory T cells in vitro. Spleen cells from mice treated with DCs plus ApoB100 plus interleukin-10 showed diminished proliferative responses to ApoB100 and significantly dampened T-helper 1 and 2 immunity to ApoB100. Spleen CD4(+) T cells from these mice suppressed activation of ApoB100-reactive T cells in a manner characteristic of regulatory T cells, and mRNA analysis of lymphoid organs showed induction of transcripts characteristic of these cells. Treatment of huB100(tg) × Ldlr(-/-) mice with ApoB100-pulsed tolerogenic DCs led to a significant (70%) reduction of atherosclerotic lesions in the aorta, with decreased CD4(+) T-cell infiltration and signs of reduced systemic inflammation.
Tolerogenic DCs pulsed with ApoB100 reduced the autoimmune response against low-density lipoprotein and may represent a novel possibility for treatment or prevention of atherosclerosis.
The accurate semantic segmentation of point cloud data is the basis for their application in the inspection of extra high-voltage transmission lines (EHVTL). As deep learning evolves, ...point-wise-based deep neural networks have shown great potential for the semantic segmentation of EHVTL point clouds. However, EHVTL point cloud data are characterized by a large data volume and significant class imbalance. Therefore, the down-sampling method and point cloud feature extraction method used in current point-wise-based deep neural networks hardly meet the needs of computational accuracy and efficiency. In this paper, we proposed a two-step down-sampling method and a point cloud feature extraction method based on local feature aggregation of the point clouds after down-sampling in each layer of the model (LFAPAD). We then established a deep neural network named PowerLine-Net for the semantic segmentation of the EHVTL point clouds. Furthermore, in order to test and analyze the performance of PowerLine-Net, we constructed a point cloud dataset for the EHVTL scenes. Using this dataset and the Semantic3D dataset, we implemented network parameter testing, semantic segmentation, and an accuracy comparison of different networks based on PowerLine-Net. The results illustrate that the semantic segmentation model proposed in this paper has a high computational efficiency and accuracy in the semantic segmentation of EHVTL point clouds. Compared with conventional deep neural networks, including PointCNN, KPConv, SPG, PointNet++, and RandLA-Net, PowerLine-Net also achieves a higher accuracy in the semantic segmentation of EHVTL point clouds. Moreover, based on the results predicted by PowerLine-Net, the risk point detection for EHVTL point clouds has been achieved, which demonstrates the important value of this network in practical applications. In addition, as shown by the results of Semantic3D, PowerLine-Net also achieves a high segmentation accuracy, which proves its powerful capability and wide applicability in semantic segmentation for the point clouds of large-scale scenes.
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In the process of synthetic aperture radar image noise suppression by the bi‐dimensional empirical mode decomposition (BEMD) algorithm, the edge effect is a key problem in the BEMD operation. To ...weaken this effect, an improved BEMD‐kernel principal component analysis (BEMD‐KPCA) method of image denoising is proposed in this study. Experimental results show that the BEMDKPCA algorithm has a good capability of improving edge effects in the BEMD decomposition process and satisfying the requirement of the reliable decomposition results. Compared with the traditional BEMD method, the proposed approach has a good effect on suppressing speckle noise. Additionally, the denoised image from the decomposed components of the IMFs processed by the BEMD‐KPCA method sufficiently preserves the edge and detail information, confirming its high coherency with the original image.
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