A Hybrid Architecture for Out of Domain Intent Detection and Intent Discovery

Intent Detection is one of the tasks of the Natural Language Understanding (NLU) unit in task-oriented dialogue systems. Out of Scope (OOS) and Out of Domain (OOD) inputs may run these systems into a problem. On the other side, a labeled dataset is needed to train a model for Intent Detection in task-oriented dialogue systems. The creation of a labeled dataset is time-consuming and needs human resources. The purpose of this article is to address mentioned problems. The task of identifying OOD/OOS inputs is named OOD/OOS Intent Detection. Also, discovering new intents and pseudo-labeling of OOD inputs is well known by Intent Discovery. In OOD intent detection part, we make use of a Variational Autoencoder to distinguish between known and unknown intents independent of input data distribution. After that, an unsupervised clustering method is used to discover different unknown intents underlying OOD/OOS inputs. We also apply a non-linear dimensionality reduction on OOD/OOS representations to make distances between representations more meaning full for clustering. Our results show that the proposed model for both OOD/OOS Intent Detection and Intent Discovery achieves great results and passes baselines in English and Persian languages

In silico Methods for Modeling of Genomic Regions for Immunological and Metabolic Gene Modulating to Stress Response in Chicken: Where We Are?

Publication history: Accepted - 30 April 2022; Published online - 1 September 2022Traditionally, commercial broilers are not well adapted and currently subjected to a variety of environmental challenges. In recent years, researchers have shown an increased interest in stress as one of the greatest environmental challenges to the profitability of sustainable intensive poultry production. In this scenario, understanding the complexity of the molecular basis and genomics of the stress response is critical to successful breeding programs for climate-adapted chickens. Recently, numerous popular studies have attempted to identify candidate genes that control stress responses in chickens. However, a number of questions regarding the choice of stress response remain unanswered or inadequately answered regarding the number of lead candidate genes that control components of the non-infectious and infectious stress response. With this motivation, 89 journal articles were collected for the primary investigation and those with low validity were excluded from further analysis. In short, we used three types of information sources, namely: text-based systematic review, in silico modeling, and both network and pathway approaches, to introduce more effective and bio-indicators of gene-controlling stress responses in chickens through older literature. Gene ontology (GO) and pathway networking of candidate gene associated with stress was loaded into Cytoscape for analysis. The result provides additional evidence and highlights, including nearly 9 candidate genes. According to published studies, CRYAB, HSP90AA1, IL6, HSPA2, HSF2, HSPB1, HSF3, PLK1, BAG3 are mostly associated with non-infectious and infectious stressors and may deserve further attention. String database analysis illustrated role of highlighted gene in multiple cellular task and functionally such as ATPase activity, cellular processes, including protection of the proteome from stress, folding and transport of newly synthesized polypeptides, activation of proteolysis of misfold proteins and the formation and dissociation of protein complexes. Obtained information from Animal QTL database indicated important role of chromosomes numbers 2, 3, 4, 5, 12, 14 and 24 associated with stress resistance and susceptibility. On this basis, this report attempts to find out whi

Behavioural Traits in Bos taurus Cattle, Their Heritability, Potential Genetic Markers, and Associations with Production Traits.

Publication history: Accepted - 26 September 2022; Published online - 29 September 2022Simple Summary Cattle have the potential to seriously injure humans and cause damage to property. The risk of cattle reacting in a dangerous manner can be reduced through genetic selection for cattle which have a better temperament. A literature search was undertaken which returned papers which met the criteria of “Bovine”, “Genetics” and “Behaviour” or terms therein. Behavioural traits were grouped and their heritability, genomic associations and correlations with production traits examined. It was found that heritability estimates were more accurate in studies with large populations (n > 1000). Gene associations with behavioural traits were found on all chromosomes except for chromosome 13, with associated SNPs reported on all chromosomes except 5, 13, 17, 18 and 23. Generally, it was found that correlations between behaviour and production traits were low or negligible, suggesting that genetic improvement can be undertaken without negatively affecting production. There was variation between the results of the studies examined, and this underlines that any genetic study is population specific. Thus, to assess the heritability, genetic associations with production and genomic areas of interest for behavioural traits, a large-scale study of the population of interest would be required. Abstract People who work with cattle are at severe risk of serious injury due to the size and strength of the cattle. This risk can be minimised by breeding less dangerous cattle, which have a more favourable reaction to humans. This study provides a systematic review of literature pertaining to cattle genetics relating to behaviour. The review protocol was developed using the Preferred Reporting Items for Systematic reviews and Meta-Analyses (PRISMA) framework, with Population, Exposure and Outcome components identified as Bovine, Genetics and Behaviour respectively. Forty-nine studies were identified in the sifting and assigned non-exclusively to groups of heritability (22), genomic associations (13) and production traits related to behaviour (24). Behavioural traits were clustered into the following groups: “temperament, disposition and/ or docility”, “aggression”, “chute score”, “flight speed”, “milking temperament”, “non-restrained methods” and “restrained methods”. Fourteen papers reported high accuracy (Standard Error ≤ 0.05) estimates of heritability, the majority (n = 12) of these studies measured over 1000 animals. The heritability estimates were found to vary between studies. Gene associations with behavioural traits were found on all chromosomes except for chromosome 13, with associated SNPs reported on all chromosomes except 5, 13, 17, 18 and 23. Generally, it was found that correlations between behaviour and production traits were low or negligible. These studies suggest that additive improvement of behavioural traits in cattle is possible and would not negatively impact performance. However, the variation between studies demonstrates that the genetic relationships are population specific. Thus, to assess the heritability, genetic associations with production and genomic areas of interest for behavioural traits, a large-scale study of the population of interest would be requiredThis research was funded by the Department of Agriculture, Environment and Rural Affairs (DAERA), Northern Ireland as part of the “TemperGene” project, grant number 19 1 03 (48283

De novo Transcriptome Assembly and Differential Expression Analysis of Catharanthus roseus in Response to Salicylic acid

Publication history: Accepted - 12 September 2022; Published online - 24 October 2022The anti-cancer vinblastine and vincristine alkaloids can only be naturally found in periwinkle (Catharanthus roseus). Both of these alkaloids' accumulations are known to be influenced by salicylic acid (SA). The transcriptome data to reveal the induction effect (s) of SA, however, seem restricted at this time. In this study, the de novo approach of transcriptome assembly was performed on the RNA-Sequencing (RNA-Seq) data in C. roseus. The outcome demonstrated that SA treatment boosted the expression of all the genes in the Terpenoid Indole Alkaloids (TIAs) pathway that produces the vinblastine and vincristine alkaloids. These outcomes supported the time-course measurements of vincristine alkaloid, the end product of the TIAs pathway, and demonstrated that SA spray had a positive impact on transcription and alkaloid synthesis. Additionally, the abundance of transcription factor families including bHLH, C3H, C2H2, MYB, MYB-related, AP2/ ERF, NAC, bZIP, and WRKY suggests a role for a variety of transcription families in response to the SA stimuli. Di-nucleotide and tri-nucleotide SSRs were the most prevalent SSR markers in microsatellite analyses, making up 39% and 34% of all SSR markers, respectively, out of the 77,192 total SSRs discovered

Human–Animal Interactions with Bos taurus Cattle and Their Impacts on On-Farm Safety: A Systematic Review

Publication history: Accepted - 17 March 2022; Published - 19 March 2022.Simple Summary: Cattle are large animals that can cause serious injuries to humans. Humans may encounter cattle through working on farms, living on a farm, or traversing fields with cattle. A systematic review was carried out to assess the factors which may lead to a dangerous interaction with cattle. A literature search was carried out to find papers that included the criteria ‘Bovine’, ‘Handling’, ‘Behaviour’ and ‘Safety’, or terms therein. The search returned 17 papers, and after collation, six themes were identified: actions of humans; human demographics, attitude, and experience; facilities and the environment; the animal involved; under-reporting and poor records; and mitigation of dangerous interactions. Exploration of these themes shows that more accurate recording of interactions before an injury is required. Furthermore, targeted, tailored education for anyone who may come into contact with cattle could reduce cattle-induced injuries. Abstract: Cattle production necessitates potentially dangerous human–animal interactions. Cattle are physically strong, large animals that can inflict injuries on humans accidentally or through aggressive behaviour. This study provides a systematic review of literature relating to farm management practices (including humans involved, facilities, and the individual animal) associated with cattle temperament and human’s on-farm safety. The Preferred Reporting Items for Systematic reviews and Meta-Analyses (PRISMA) was used to frame the review. Population, Exposure, and Outcomes (PEO) components of the research question are defined as “Bovine” (population), “Handling” (exposure), and outcomes of “Behaviour”, and “Safety”. The review included 17 papers and identified six main themes: actions of humans; human demographics, attitude, and experience; facilities and the environment; the animal involved; under-reporting and poor records; and mitigation of dangerous interactions. Cattle-related incidents were found to be underreported, with contradictory advice to prevent injury. The introduction of standardised reporting and recording of incidents to clearly identify the behaviours and facilities which increase injuries could inform policy to reduce injuries. Global differences in management systems and animal types mean that it would be impractical to impose global methods of best practice to reduce the chance of injury. Thus, any recommendations should be regionally specific, easily accessible, and practicable.Department of Agriculture, Environment and Rural Affairs (DAERA), Northern Ireland as part of the “TemperGene” project, grant number 19 1 03 (48283)

Integrated Comparative Transcriptome and circRNA-lncRNA-miRNA-mRNA ceRNA Regulatory Network Analyses Identify Molecular Mechanisms Associated with Intramuscular Fat Content in Beef Cattle

Publication history: Accepted - 8 August 2023; Published - 11 August 2023.Intramuscular fat content (IMF), one of the most important carcass traits in beef cattle, is controlled by complex regulatory factors. At present, molecular mechanisms involved in regulating IMF and fat metabolism in beef cattle are not well understood. Our objective was to integrate comparative transcriptomic and competing endogenous RNA (ceRNA) network analyses to identify candidate messenger RNAs (mRNAs) and regulatory RNAs involved in molecular regulation of longissimus dorsi muscle (LDM) tissue for IMF and fat metabolism of 5 beef cattle breeds (Angus, Chinese Simmental, Luxi, Nanyang, and Shandong Black). In total, 34 circRNAs, 57 lncRNAs, 15 miRNAs, and 374 mRNAs were identified by integrating gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses. Furthermore, 7 key subnets with 16 circRNAs, 43 lncRNAs, 7 miRNAs, and 237 mRNAs were detected through clustering analyses, whereas GO enrichment analysis of identified RNAs revealed 48, 13, and 28 significantly enriched GO terms related to IMF in biological process, molecular function, and cellular component categories, respectively. The main metabolic-signaling pathways associated with IMF and fat metabolism that were enriched included metabolic, calcium, cGMP-PKG, thyroid hormone, and oxytocin signaling pathways. Moreover, MCU, CYB5R1, and BAG3 genes were common among the 10 comparative groups defined as important candidate marker genes for fat metabolism in beef cattle. Contributions of transcriptome profiles from various beef breeds and a competing endogenous RNA (ceRNA) regulatory network underlying phenotypic differences in IMF provided novel insights into molecular mechanisms associated with meat quality.No external funding