THiFLY Research at SemEval-2023 Task 7: A Multi-granularity System for CTR-based Textual Entailment and Evidence Retrieval

The NLI4CT task aims to entail hypotheses based on Clinical Trial Reports (CTRs) and retrieve the corresponding evidence supporting the justification. This task poses a significant challenge, as verifying hypotheses in the NLI4CT task requires the integration of multiple pieces of evidence from one or two CTR(s) and the application of diverse levels of reasoning, including textual and numerical. To address these problems, we present a multi-granularity system for CTR-based textual entailment and evidence retrieval in this paper. Specifically, we construct a Multi-granularity Inference Network (MGNet) that exploits sentence-level and token-level encoding to handle both textual entailment and evidence retrieval tasks. Moreover, we enhance the numerical inference capability of the system by leveraging a T5-based model, SciFive, which is pre-trained on the medical corpus. Model ensembling and a joint inference method are further utilized in the system to increase the stability and consistency of inference. The system achieves f1-scores of 0.856 and 0.853 on textual entailment and evidence retrieval tasks, resulting in the best performance on both subtasks. The experimental results corroborate the effectiveness of our proposed method. Our code is publicly available at https://github.com/THUMLP/NLI4CT.Comment: Accepted by SemEval202

FOXL2 and DMRT1L Are Yin and Yang Genes for Determining Timing of Sex Differentiation in the Bivalve Mollusk Patinopecten yessoensis

Sex determination and differentiation have long been a research hotspot in metazoans. However, little is known about when and how sex differentiation occurs in most mollusks. In this study, we conducted a combined morphological and molecular study on sex differentiation in the Yesso scallop Patinopecten yessoensis. Histological examination on gonads from 5- to 13-month-old juveniles revealed that the morphological sex differentiation occurred at 10 months of age. To determine the onset of molecular sex differentiation, molecular markers were screened for early identification of sex. The gonadal expression profiles of eight candidate genes for sex determination or differentiation showed that only two genes displayed sexually dimorphic expression, with FOXL2 being abundant in ovaries and DMRT1L in testes. In situ hybridization revealed that both of them were detected in germ cells and follicle cells. We therefore developed LOG10(DMRT1L/FOXL2) for scallop sex identification and confirmed its feasibility in differentiated individuals. By tracing its changes in 5- to 13-month-old juveniles, molecular sex differentiation time was determined: some scallops differentiate early in September when they are 7 months old, and some do late in December when they are 10 months old. Two kinds of coexpression patterns were found between FOXL2 and DMRT1L: expected antagonism after differentiation and unexpected coordination before differentiation. Our results revealed that scallop sex differentiation co-occurs with the formation of follicles, and molecular sex differentiation is established prior to morphological sex differentiation. Our study will assist in a better understanding of the molecular mechanism underlying bivalve sex differentiation

Identification and characterization of gonadotropin-releasing hormone (GnRH) in Zhikong scallop Chlamys farreri during gonadal development

Gonadotropin-releasing hormone (GnRH) controls synthesis of sex steroid hormones through hypothalamic-pituitary-gonadal (HPG) axis in vertebrates. But in mollusks, research on neuroendocrine control of gonadal function, such as the function of GnRH during gonadal development is limited. In this study, we investigated the morphology and structure of the nerve ganglia of Zhikong scallop Chlamys farreri by physiological and histological observations. We also cloned the ORF and studied the expression patterns of GnRH in the scallop. Tissue expression analysis showed that GnRH was highly expressed in parietovisceral ganglion (PVG). The in situ hybridization result further confirmed that GnRH mRNA only distributed in some good-sized neurons in the posterior lobe (PL) and some pint-sized neurons in the lateral lobe (LL). In addition, by examining the expression of GnRH during gonadal development in ganglia, we found GnRH displayed higher expression in the female scallops, and showed significant high expression at the growing stage of female scallops in PVG. This study would contribute to gaining insight into the mechanism underlying reproduction regulation by GnRH in the scallop and help to provide a better understanding of reproductive neuroendocrine in mollusks

Research on the Temperature Field of High-Voltage High Power Line Start Permanent Magnet Synchronous Machines with Different Rotor Cage Structure

For line start permanent magnet synchronous machines (LSPMSMs), the eddy current loss in the rotor, which has of significant effects on rotor working temperature, may cause thermal demagnetization to permanent magnet. Therefore, this paper addresses an investigation on the temperature distribution in LSPMSM based on a 6 kV, 315 kW prototype with solid starting cage bar. Firstly, the loss distributions, obtained from a 2-D transient electromagnetic field calculation, are determined as the distributed heat source in thermal analyses. Then, the fluid-thermal coupled analyses are performed, by which the temperature distributions in the machine are determined. Meanwhile, the calculated motor performance is verified via comparison with the measured results. The calculation results show that the temperatures in the rotor core and permanent magnets are relatively high. To find the solution for reducing the rotor working temperature, a rotor air slot structure was proposed in this analysis. The theoretical calculation indicates that the rotor working temperature reduction is obvious with the rotor air slot in the machine. Therefore, the operating situation of solid rotor LSPMSM could be improved effectively with the proposed rotor thermal solution, which also benefits the machine reliability and safety

Extraction and Analysis of Finer Impervious Surface Classes in Urban Area

Impervious surfaces (IS), the most common land cover in urban areas, not only provide convenience to the city, but also exert significant negative environmental impacts, thereby affecting the ecological environment carrying capacity of urban agglomerations. Most of the current research considers IS as a single land-cover type, yet this does not fully reflect the complex physical characteristics of various IS types. Therefore, limited information for urban micro-ecology and urban fine management can be provided through one IS land-cover type. This study proposed a finer IS classification scheme and mapped the detailed IS fraction in Guangzhou City, China using Landsat imagery. The IS type was divided into seven finer classes, including blue steel, cement, asphalt, other impervious surface, and other metal, brick, and plastic. Classification results demonstrate that finer IS can be well extracted from the Landsat imagery as all root mean square errors (RMSE) are less than 15%. Specially, the accuracies of asphalt, plastic, and cement are better than other finer IS types with the RMSEs of 7.99%, 8.48%, and 9.92%, respectively. Quantitative analyses illustrate that asphalt, other impervious surface, and brick are the dominant IS types in the study area with the percentages of 9.68%, 6.27%, and 4.45%, respectively, and they are mainly located in Yuexiu, Liwan, Haizhu, and Panyu districts. These results are valuable for research into urban fine management and can support the detailed analysis of urban micro-ecology

A holistic product design and analysis model and its application in railway vehicle systems design

For complex mechanical systems, to overcome design inconsistencies, it is becoming more and more necessary that product design system is effectively integrated with various analysis models and tools from multiple engineering domains at different design stages. In this article, a Holistic Product Design and Analysis Model, which is well supported by Top–Down design method, is conceptualized to define design and analysis integration at different levels, which will help enhance engineering design and analysis interoperability and integrate the design methods and analysis tools across multiple engineering domains. It is based on four design levels: system, subsystem, machine and component designs; at each level, design and analysis models are integrated under a Generalized Multirepresentation Architecture supporting design, analysis and optimization appropriately. For cross-level integration from top to bottom, the design models are transferred and mapped with more structural and geometric details, while analysis models obtain more detailed design constraints from the top levels. This new architecture has been developed and demonstrated with an application in a railway vehicle system design, although its optimization components have not been fully implemented. This model can be used for general mechanical product system design

Systematic identification and validation of the reference genes from 60 RNA-Seq libraries in the scallop Mizuhopecten yessoensis

Abstract Background Reverse transcription quantitative PCR (RT-qPCR) is widely used for gene expression analysis in various organisms. Its accuracy largely relies on the stability of reference genes, making reference gene selection a vital step in RT-qPCR experiments. However, previous studies in mollusks only focused on the reference genes widely used in vertebrates. Results In this study, we conducted the transcriptome-wide identification of reference genes in the bivalve mollusk Mizuhopecten yessoensis based on 60 transcriptomes covering early development, adult tissues and gonadal development. A total of 964, 1210 and 2097 candidate reference genes were identified, respectively, resulting in a core set of 568 genes. Functional enrichment analysis showed that these genes are significantly overrepresented in Gene Ontology (GO) terms or Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways related to ribosomes, energy production, etc. Six genes (RS23, EF1A, NDUS4, SELR1, EIF3F, and OLA1) were selected from the candidate genes for RT-qPCR validation, together with 6 commonly used reference genes (ACT, CYTC, HEL, EF1B, GAPDH and RPL16). Stability analyses using geNorm, NormFinder and the comparative delta-Ct method revealed that the new candidate reference genes are more stable than the traditionally used genes, and ACT and CYTC are not recommended under either of the three circumstances. There was a significant correlation between the Ct of RT-qPCR and the log2(TPM) of RNA-Seq data (Ct = − 0.94 log2(TPM) + 29.67, R2 = 0.73), making it easy to estimate the Ct values from transcriptome data prior to RT-qPCR experiments. Conclusion Our study represents the first transcriptome-wide identification of reference genes for early development, adult tissues, and gonadal development in the Yesso scallop and will benefit gene expression studies in other bivalve mollusks

Whole transcriptome expression profiles in kidney samples from rats with hyperuricaemic nephropathy.

Hyperuricaemic nephropathy (HN) is a common clinical complication of hyperuricaemia (HUA) and poses a huge threat to human health. Hence, we aimed to prospectively investigate the dysregulated genes, pathways and networks involved in HN by performing whole transcriptome sequencing using RNA sequencing. Six kidney samples from HN group (n = 3) and a control group (n = 3) were obtained to conduct RNA sequencing. To disclose the relevant signalling pathways, we conducted the analysis of differentially expressed genes (DEGs), Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis. A competitive endogenous RNA (ceRNA) network was established to reveal the interactions between lncRNAs, circRNAs, mRNAs and miRNAs and investigate the potential mechanisms of HN. Ultimately, 2250 mRNAs, 306 lncRNAs, 5 circRNAs, and 70 miRNAs were determined to be significantly differentially expressed in the HN group relative to the control group. We further authenticated 8 differentially expressed (DE)-ncRNAs by quantitative real-time polymerase chain reaction, and these findings were in accordance with the sequencing results. The analysis results evidently showed that these DE-ncRNAs were significantly enriched in pathways related to inflammatory reaction. In conclusion, HUA may generate abnormal gene expression changes and regulate signalling pathways in kidney samples. Potentially related genes and pathways involved in HN were identified