Background
The severity of coronavirus disease 2019 (COVID-19) caused by the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is highly heterogeneous. Studies have reported that males and some ethnic groups are at increased risk of death from COVID-19, which implies that individual risk of death might be influenced by host genetic factors.
Methods
In this project, we consider the mortality as the trait of interest and perform a genome-wide association study (GWAS) of data for 1778 infected cases (445 deaths, 25.03%) distributed by the UK Biobank. Traditional GWAS fails to identify any genome-wide significant genetic variants from this dataset. To enhance the power of GWAS and account for possible multi-loci interactions, we adopt the concept of super variant for the detection of genetic factors. A discovery-validation procedure is used for verifying the potential associations.
Results
We find 8 super variants that are consistently identified across multiple replications as susceptibility loci for COVID-19 mortality. The identified risk factors on chromosomes 2, 6, 7, 8, 10, 16, and 17 contain genetic variants and genes related to cilia dysfunctions (DNAH7 and CLUAP1), cardiovascular diseases (DES and SPEG), thromboembolic disease (STXBP5), mitochondrial dysfunctions (TOMM7), and innate immune system (WSB1). It is noteworthy that DNAH7 has been reported recently as the most downregulated gene after infecting human bronchial epithelial cells with SARS-CoV-2.
Conclusions
Eight genetic variants are identified to significantly increase the risk of COVID-19 mortality among the patients with white British ancestry. These findings may provide timely clues and potential directions for better understanding the molecular pathogenesis of COVID-19 and the genetic basis of heterogeneous susceptibility, with potential impact on new therapeutic options.
Lexically-constrained sequence decoding allows for explicit positive or negative phrasebased constraints to be placed on target output strings in generation tasks such as machine translation or monolingual text rewriting. We describe vectorized dynamic beam allocation, which extends work in lexically-constrained decoding to work with batching, leading to a five-fold improvement in throughput when working with positive constraints. Faster decoding enables faster exploration of constraint strategies: we illustrate this via data augmentation experiments with a monolingual rewriter applied to the tasks of natural language inference, question answering and machine translation, showing improvements in all three.
We present a large scale collection of diverse natural language inference (NLI) datasets that help provide insight into how well a sentence representation captures distinct types of reasoning. The collection results from recasting 13 existing datasets from 7 semantic phenomena into a common NLI structure, resulting in over half a million labeled context-hypothesis pairs in total. We refer to our collection as the DNC: Diverse Natural Language Inference Collection. The DNC is available online at http://www.decomp.net, and will grow over time as additional resources are recast and added from novel sources.
We present a large scale collection of diverse natural language inference (NLI) datasets that help provide insight into how well a sentence representation encoded by a neural network captures distinct types of reasoning. The collection results from recasting 13 existing datasets from 7 semantic phenomena into a common NLI structure, resulting in over half a million labeled context-hypothesis pairs in total. Our collection of diverse datasets is available at http://www.decomp.net/, and will grow over time as additional resources are recast and added from novel sources.
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