Supervised Attentions for Neural Machine Translation

In this paper, we improve the attention or alignment accuracy of neural machine translation by utilizing the alignments of training sentence pairs. We simply compute the distance between the machine attentions and the "true" alignments, and minimize this cost in the training procedure. Our experiments on large-scale Chinese-to-English task show that our model improves both translation and alignment qualities significantly over the large-vocabulary neural machine translation system, and even beats a state-of-the-art traditional syntax-based system.Comment: 6 pages. In Proceedings of EMNLP 2016. arXiv admin note: text overlap with arXiv:1605.0314

Integration of multi-scale protein interactions for biomedical data analysis

With the advancement of modern technologies, we observe an increasing accumulation of biomedical data about diseases. There is a need for computational methods to sift through and extract knowledge from the diverse data available in order to improve our mechanistic understanding of diseases and improve patient care. Biomedical data come in various forms as exemplified by the various omics data. Existing studies have shown that each form of omics data gives only partial information on cells state and motivated jointly mining multi-omics, multi-modal data to extract integrated system knowledge. The interactome is of particular importance as it enables the modelling of dependencies arising from molecular interactions. This Thesis takes a special interest in the multi-scale protein interactome and its integration with computational models to extract relevant information from biomedical data. We define multi-scale interactions at different omics scale that involve proteins: pairwise protein-protein interactions, multi-protein complexes, and biological pathways. Using hypergraph representations, we motivate considering higher-order protein interactions, highlighting the complementary biological information contained in the multi-scale interactome. Based on those results, we further investigate how those multi-scale protein interactions can be used as either prior knowledge, or auxiliary data to develop machine learning algorithms. First, we design a neural network using the multi-scale organization of proteins in a cell into biological pathways as prior knowledge and train it to predict a patient's diagnosis based on transcriptomics data. From the trained models, we develop a strategy to extract biomedical knowledge pertaining to the diseases investigated. Second, we propose a general framework based on Non-negative Matrix Factorization to integrate the multi-scale protein interactome with multi-omics data. We show that our approach outperforms the existing methods, provide biomedical insights and relevant hypotheses for specific cancer types

Preference Learning for Machine Translation

Automatic translation of natural language is still (as of 2017) a long-standing but unmet promise. While advancing at a fast rate, the underlying methods are still far from actually being able to reliably capture syntax or semantics of arbitrary utterances of natural language, way off transporting the encoded meaning into a second language. However, it is possible to build useful translating machines when the target domain is well known and the machine is able to learn and adapt efficiently and promptly from new inputs. This is possible thanks to efficient and effective machine learning methods which can be applied to automatic translation. In this work we present and evaluate methods for three distinct scenarios: a) We develop algorithms that can learn from very large amounts of data by exploiting pairwise preferences defined over competing translations, which can be used to make a machine translation system robust to arbitrary texts from varied sources, but also enable it to learn effectively to adapt to new domains of data; b) We describe a method that is able to efficiently learn external models which adhere to fine-grained preferences that are extracted from a constricted selection of translated material, e.g. for adapting to users or groups of users in a computer-aided translation scenario; c) We develop methods for two machine translation paradigms, neural- and traditional statistical machine translation, to directly adapt to user-defined preferences in an interactive post-editing scenario, learning precisely adapted machine translation systems. In all of these settings, we show that machine translation can be made significantly more useful by careful optimization via preference learning

Survey of the State of the Art in Natural Language Generation: Core tasks, applications and evaluation

This paper surveys the current state of the art in Natural Language Generation (NLG), defined as the task of generating text or speech from non-linguistic input. A survey of NLG is timely in view of the changes that the field has undergone over the past decade or so, especially in relation to new (usually data-driven) methods, as well as new applications of NLG technology. This survey therefore aims to (a) give an up-to-date synthesis of research on the core tasks in NLG and the architectures adopted in which such tasks are organised; (b) highlight a number of relatively recent research topics that have arisen partly as a result of growing synergies between NLG and other areas of artificial intelligence; (c) draw attention to the challenges in NLG evaluation, relating them to similar challenges faced in other areas of Natural Language Processing, with an emphasis on different evaluation methods and the relationships between them.Comment: Published in Journal of AI Research (JAIR), volume 61, pp 75-170. 118 pages, 8 figures, 1 tabl

LIPIcs, Volume 261, ICALP 2023, Complete Volume

LIPIcs, Volume 261, ICALP 2023, Complete Volum

Machine Learning and Natural Language Processing in Stock Prediction

In this thesis, we first study the two ill-posed natural language processing tasks related to stock prediction, i.e. stock movement prediction and financial document-level event extraction. While implementing stock prediction and event extraction, we encountered difficulties that could be resolved by utilizing out-of-distribution detection. Consequently, we presented a new approach for out-of-distribution detection, which is the third focus of this thesis. First, we systematically build a platform to study the NLP-aided stock auto-trading algorithms. Our platform is characterized by three features: (1) We provide financial news for each specific stock. (2) We provide various stock factors for each stock. (3) We evaluate performance from more financial-relevant metrics. Such a design allows us to develop and evaluate NLP-aided stock auto-trading algorithms in a more realistic setting. We also propose a system to automatically learn a good feature representation from various input information. The key to our algorithm is a method called semantic role labelling Pooling (SRLP), which leverages Semantic Role Labeling (SRL) to create a compact representation of each news paragraph. Based on SRLP, we further incorporate other stock factors to make the stock movement prediction. In addition, we propose a self-supervised learning strategy based on SRLP to enhance the out-of-distribution generalization performance of our system. Through our experimental study, we show that the proposed method achieves better performance and outperforms all strong baselines’ annualized rate of return as well as the maximum drawdown in back-testing. Second, we propose a generative solution for document-level event extraction that takes into account recent developments in generative event extraction, which have been successful at the sentence level but have not yet been explored for document-level extraction. Our proposed solution includes an encoding scheme to capture entity-to-document level information and a decoding scheme that takes into account all relevant contexts. Extensive experimental results demonstrate that our generative-based solution can perform as well as state-of-theart methods that use specialized structures for document event extraction. This allows our method to serve as an easy-to-use and strong baseline for future research in this area. Finally, we propose a new unsupervised OOD detection model that separates, extracts, and learns the semantic role labelling guided fine-grained local feature representation from different sentence arguments and the full sentence using a margin-based contrastive loss. Then we demonstrate the benefit of applying a self-supervised approach to enhance such global-local feature learning by predicting the SRL extracted role. We conduct our experiments and achieve state-of-the-art performance on out-of-distribution benchmarks.Thesis (Ph.D.) -- University of Adelaide, School of Computer and Mathematical Sciences, 202

LIPIcs, Volume 244, ESA 2022, Complete Volume

LIPIcs, Volume 244, ESA 2022, Complete Volum

Modélisation formelle des systèmes de détection d'intrusions

L’écosystème de la cybersécurité évolue en permanence en termes du nombre, de la diversité, et de la complexité des attaques. De ce fait, les outils de détection deviennent inefficaces face à certaines attaques. On distingue généralement trois types de systèmes de détection d’intrusions : détection par anomalies, détection par signatures et détection hybride. La détection par anomalies est fondée sur la caractérisation du comportement habituel du système, typiquement de manière statistique. Elle permet de détecter des attaques connues ou inconnues, mais génère aussi un très grand nombre de faux positifs. La détection par signatures permet de détecter des attaques connues en définissant des règles qui décrivent le comportement connu d’un attaquant. Cela demande une bonne connaissance du comportement de l’attaquant. La détection hybride repose sur plusieurs méthodes de détection incluant celles sus-citées. Elle présente l’avantage d’être plus précise pendant la détection. Des outils tels que Snort et Zeek offrent des langages de bas niveau pour l’expression de règles de reconnaissance d’attaques. Le nombre d’attaques potentielles étant très grand, ces bases de règles deviennent rapidement difficiles à gérer et à maintenir. De plus, l’expression de règles avec état dit stateful est particulièrement ardue pour reconnaître une séquence d’événements. Dans cette thèse, nous proposons une approche stateful basée sur les diagrammes d’état-transition algébriques (ASTDs) afin d’identifier des attaques complexes. Les ASTDs permettent de représenter de façon graphique et modulaire une spécification, ce qui facilite la maintenance et la compréhension des règles. Nous étendons la notation ASTD avec de nouvelles fonctionnalités pour représenter des attaques complexes. Ensuite, nous spécifions plusieurs attaques avec la notation étendue et exécutons les spécifications obtenues sur des flots d’événements à l’aide d’un interpréteur pour identifier des attaques. Nous évaluons aussi les performances de l’interpréteur avec des outils industriels tels que Snort et Zeek. Puis, nous réalisons un compilateur afin de générer du code exécutable à partir d’une spécification ASTD, capable d’identifier de façon efficiente les séquences d’événements.Abstract : The cybersecurity ecosystem continuously evolves with the number, the diversity, and the complexity of cyber attacks. Generally, we have three types of Intrusion Detection System (IDS) : anomaly-based detection, signature-based detection, and hybrid detection. Anomaly detection is based on the usual behavior description of the system, typically in a static manner. It enables detecting known or unknown attacks but also generating a large number of false positives. Signature based detection enables detecting known attacks by defining rules that describe known attacker’s behavior. It needs a good knowledge of attacker behavior. Hybrid detection relies on several detection methods including the previous ones. It has the advantage of being more precise during detection. Tools like Snort and Zeek offer low level languages to represent rules for detecting attacks. The number of potential attacks being large, these rule bases become quickly hard to manage and maintain. Moreover, the representation of stateful rules to recognize a sequence of events is particularly arduous. In this thesis, we propose a stateful approach based on algebraic state-transition diagrams (ASTDs) to identify complex attacks. ASTDs allow a graphical and modular representation of a specification, that facilitates maintenance and understanding of rules. We extend the ASTD notation with new features to represent complex attacks. Next, we specify several attacks with the extended notation and run the resulting specifications on event streams using an interpreter to identify attacks. We also evaluate the performance of the interpreter with industrial tools such as Snort and Zeek. Then, we build a compiler in order to generate executable code from an ASTD specification, able to efficiently identify sequences of events