The role of focal amplifications and extrachromosomal DNA (ecDNA) is unknown in gastric cardia adenocarcinoma (GCA). Here, we identify frequent focal amplifications and ecDNAs in Chinese GCA patient samples, and find focal amplifications in the GCA cohort are associated with the chromothripsis process and may be induced by accumulated DNA damage due to local dietary habits. We observe diverse correlations between the presence of oncogene focal amplifications and prognosis, where ERBB2 focal amplifications positively correlate with prognosis and EGFR focal amplifications negatively correlate with prognosis. Large-scale ERBB2 immunohistochemistry results from 1668 GCA patients show survival probability of ERBB2 positive patients is lower than that of ERBB2 negative patients when their surviving time is under 2 years, however, the tendency is opposite when their surviving time is longer than 2 years. Our observations indicate that the ERBB2 focal amplifications may represent a good prognostic marker in GCA patients.

The application of ship detection for assistant intelligent ship navigation has stringent requirements for the model’s detection speed and accuracy. In response to this problem, this study uses an improved YOLO-V4 detection model (ShipYOLO) to detect ships. Compared to YOLO-V4, the model has three main improvements. Firstly, the backbone network (CSPDarknet) of YOLO-V4 is optimized. In the training process, the 3  ×  3 convolution, 1  ×  1 convolution, and identity parallel mode are used to replace the original feature extraction component (ResUnit) and more features are extracted. In the inference process, the branch parameters are combined to form a new backbone network named RCSPDarknet, which improves the inference speed of the model while improving the accuracy. Secondly, in order to solve the problem of missed detection of the small-scale ships, we designed a new amplified receptive field module named DSPP with dilated convolution and Max-Pooling, which improves the model’s acquisition of small-scale ship spatial information and robustness of ship target space displacement. Finally, we use the attention mechanism and Resnet’s shortcut idea to improve the feature pyramid structure (PAFPN) of YOLO-V4 and get a new feature pyramid structure named AtFPN. The structure effectively improves the model’s feature extraction effect for ships of different scales and reduces the number of model parameters, further improving the model’s inference speed and detection accuracy. In addition, we have created a ship dataset with a total of 2238 images, which is a single-category dataset. The experimental results show that ShipYOLO has the advantage of faster speed and higher accuracy even in different input sizes. Considering the input size of 320  ×  320 on the PC equipped with NVIDIA 1080Ti GPU, the FPS and mAP@5 : 5:95 (mAP90) of ShipYOLO are increased by 23.7% and 13.6% (10.6%), respectively, with an input size of 320  ×  320, ShipYOLO, compared to YOLO-V4.

BackgroundA total of 453 laboratory-confirmed cases infected with avian influenza A (H7N9) virus (including 175 deaths) have been reported till October 2,2014, of which 30.68% (139/453) of the cases were identified from Zhejiang Province. We describe the largest reported cluster of virologically confirmed H7N9 cases, comprised by a fatal Index case and two mild secondary cases.MethodsA retrospective investigation was conducted in January of 2014. Three confirmed cases, their close contacts, and relevant environments samples were tested by real-time reverse transcriptase-polymerase chain reaction (RT-PCR), viral culture, and sequencing. Serum samples were tested by haemagglutination inhibition (HI) assay.ResultsThe Index case, a 49-year-old farmer with type II diabetes, who lived with his daughter (Case 2, aged 24) and wife (Case 3, aged 43) and his son-in-law (H7N9 negative). The Index case and Case 3 worked daily in a live bird market. Onset of illness in Index case occurred in January 13, 2014 and subsequently, he died of multi-organ failure on January 20. Case 2 presented with mild symptoms on January 20 following frequent unprotected bed-side care of the Index case between January 14 to 19, and exposed to live bird market on January 17. Case 3 became unwell on January 23 after providing bedside care to the Index case on January 17 to 18, and following the contact with Case 2 during January 21 to 22 at the funeral of the Index case. The two secondary cases were discharged on February 2 and 5 separately after early treatment with antiviral medication. Four virus strains were isolated and genome analyses showed 99.6 ~100% genetic homology, with two amino mutations (V192I in NS and V280A in NP). 42% (11/26) of environmental samples collected in January were H7N9 positive. Twenty-five close contacts remained well and were negative for H7N9 infection by RT-PCR and HI assay.ConclusionsIn the present study, the Index case was infected from a live bird market while the two secondary cases were infected by the Index case during unprotected exposure. This family cluster is, therefore, compatible with non-sustained person-to-person transmission of avian influenza A/H7N9.Electronic supplementary materialThe online version of this article (doi:10.1186/s12879-014-0698-6) contains supplementary material, which is available to authorized users.

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