Mutations in oncogenes are much more likely to lead to cancer in some tissue types than others, because some tissues express other proteins that counteract the oncogene. For example, in mice, the G12D activating mutation in K-ras causes lung tumors but not muscle-derived sarcomas, because muscle cells express two proteins (Arf and Ink4a) that cause cell division to halt when Ras is overactive. An automated event extraction system might extract the biochemical event "G12D activates mutation in K-ras", but without understanding the biological context - of whether this event occurs in lung or muscle tissue - the reader will not understand why the event does or does not lead to cancer. Biological context is not only important, it also comes in many varieties. Here we focus on biological container context, where a biological "container" may be specified at various levels of granularity, but each level serves to further specify the type of biological system in which an event might occur.

Robots are widely collaborating with human users in diferent tasks that require high-level cognitive functions to make them able to discover the surrounding environment. A difcult challenge that we briefy highlight in this short paper is inferring the latent grammatical structure of language, which includes grounding parts of speech (e.g., verbs, nouns, adjectives, and prepositions) through visual perception, and induction of Combinatory Categorial Grammar (CCG) for phrases. This paves the way towards grounding phrases so as to make a robot able to understand human instructions appropriately during interaction. Grounding words through visual perception - using a probabilistic generative model - has the objective of making a robot able to understand the meaning of action verbs, object characteristics (i.e., color and geometry), and spatial relationships between objects in space through a cross situational learning context between a human tutor and a robot (without any previous knowledge of language). This implies inducing unsupervised Part-of-Speech (POS) tags representing syntactic categories of words and grounding them, with the meaning of words, through visual perceptual information (Figures 1 & 2).

A natural language interface (NLI) to structured query is intriguing due to its wide industrial applications and high economical values. In this work, we tackle the problem of domain adaptation for NLI with limited data on target domain. Two important approaches are considered: (a) effective general-knowledge-learning on source domain semantic parsing, and (b) data augmentation on target domain. We present a Structured Query Inference Network (SQIN) to enhance learning for domain adaptation, by separating schema information from NL and decoding SQL in a more structural-aware manner; we also propose a GAN-based augmentation technique (AugmentGAN) to mitigate the issue of lacking target domain data. We report solid results on GeoQuery, Overnight, and WikiSQL to demonstrate state-of-the-art performances for both in-domain and domain-transfer tasks.

The explosive growth in fake news and its erosion to democracy, justice, and public trust has increased the demand for fake news analysis, detection and intervention. This survey comprehensively and systematically reviews fake news research. The survey identifies and specifies fundamental theories across various disciplines, e.g., psychology and social science, to facilitate and enhance the interdisciplinary research of fake news. Current fake news research is reviewed, summarized and evaluated. These studies focus on fake news from four perspective: (1) the false knowledge it carries, (2) its writing style, (3) its propagation patterns, and (4) the credibility of its creators and spreaders. We characterize each perspective with various analyzable and utilizable information provided by news and its spreaders, various strategies and frameworks that are adaptable, and techniques that are applicable. By reviewing the characteristics of fake news and open issues in fake news studies, we highlight some potential research tasks at the end of this survey.

In semantic parsing for question-answering, it is often too expensive to collect gold parses or even gold answers as supervision signals. We propose to convert model outputs into a set of human-understandable statements which allow non-expert users to act as proofreaders, providing error markings as learning signals to the parser. Because model outputs were suggested by a historic system, we operate in a counterfactual, or off-policy, learning setup. We introduce new estimators which can effectively leverage the given feedback and which avoid known degeneracies in counterfactual learning, while still being applicable to stochastic gradient optimization for neural semantic parsing. Furthermore, we discuss how our feedback collection method can be seamlessly integrated into deployed virtual personal assistants that embed a semantic parser. Our work is the first to show that semantic parsers can be improved significantly by counterfactual learning from logged human feedback data.

The meaning of a sentence is a function of the relations that hold between its words. We instantiate this relational view of semantics in a series of neural models based on variants of relation networks (RNs) which represent a set of objects (for us, words forming a sentence) in terms of representations of pairs of objects. We propose two extensions to the basic RN model for natural language. First, building on the intuition that not all word pairs are equally informative about the meaning of a sentence, we use constraints based on both supervised and unsupervised dependency syntax to control which relations influence the representation. Second, since higher-order relations are poorly captured by a sum of pairwise relations, we use a recurrent extension of RNs to propagate information so as to form representations of higher order relations. Experiments on sentence classification, sentence pair classification, and machine translation reveal that, while basic RNs are only modestly effective for sentence representation, recurrent RNs with latent syntax are a reliably powerful representational device.

This paper presents a Lisp architecture for a portable NLP system, termed LAPNLP, for processing clinical notes. LAPNLP integrates multiple standard, customized and in-house developed NLP tools. Our system facilitates portability across different institutions and data systems by incorporating an enriched Common Data Model (CDM) to standardize necessary data elements. It utilizes UMLS to perform domain adaptation when integrating generic domain NLP tools. It also features stand-off annotations that are specified by positional reference to the original document. We built an interval tree based search engine to efficiently query and retrieve the stand-off annotations by specifying positional requirements. We also developed a utility to convert an inline annotation format to stand-off annotations to enable the reuse of clinical text datasets with inline annotations. We experimented with our system on several NLP facilitated tasks including computational phenotyping for lymphoma patients and semantic relation extraction for clinical notes. These experiments showcased the broader applicability and utility of LAPNLP.

Translating natural language to SQL queries for table-based question answering is a challenging problem and has received significant attention from the research community. In this work, we extend a pointer-generator and investigate the order-matters problem in semantic parsing for SQL. Even though our model is a straightforward extension of a general-purpose pointer-generator, it outperforms early works for WikiSQL and remains competitive to concurrently introduced, more complex models. Moreover, we provide a deeper investigation of the potential order-matters problem that could arise due to having multiple correct decoding paths, and investigate the use of REINFORCE as well as a dynamic oracle in this context.

This paper compares classical copying and quantum entanglement in natural language by considering the case of verb phrase (VP) ellipsis. VP ellipsis is a non-linear linguistic phenomenon that requires the reuse of resources, making it the ideal test case for a comparative study of different copying behaviours in compositional models of natural language. Following the line of research in compositional distributional semantics set out by (Coecke et al., 2010) we develop an extension of the Lambek calculus which admits a controlled form of contraction to deal with the copying of linguistic resources. We then develop two different compositional models of distributional meaning for this calculus. In the first model, we follow the categorical approach of (Coecke et al., 2013) in which a functorial passage sends the proofs of the grammar to linear maps on vector spaces and we use Frobenius algebras to allow for copying. In the second case, we follow the more traditional approach that one finds in categorial grammars, whereby an intermediate step interprets proofs as non-linear lambda terms, using multiple variable occurrences that model classical copying. As a case study, we apply the models to derive different readings of ambiguous elliptical phrases and compare the analyses that each model provides.

The web contains vast repositories of unstructured text. We investigate the opportunity for building a knowledge graph from these text sources. We generate a set of triples which can be used in knowledge gathering and integration. We define the architecture of a language compiler for processing subject-predicate-object triples using the OpenNLP parser. We implement a depth-first search traversal on the POS tagged syntactic tree appending predicate and object information. A parser enables higher precision and higher recall extractions of syntactic relationships across conjunction boundaries. We are able to extract 2-2.5 times the correct extractions of ReVerb. The extractions are used in a variety of semantic web applications and question answering. We verify extraction of 50,000 triples on the ClueWeb dataset.