Publications

Abstract

Celiac disease (CD) is an intolerance to dietary proteins of wheat, barley, and rye. CD may have substantial morbidity, yet it is quite common with a prevalence of 1%-2% in Western populations. It is not clear why the CD phenotype is so prevalent despite its negative effects on human health, especially because appropriate treatment in the form of a gluten-free diet has only been available since the 1950s, when dietary gluten was discovered to be the triggering factor. The high prevalence of CD might suggest that genes underlying this disease may have been favored by the process of natural selection. We assessed signatures of selection for ten confirmed CD-associated loci in several genome-wide data sets, comprising 8154 controls from four European populations and 195 individuals from a North African population, by studying haplotype lengths via the integrated haplotype score (iHS) method. Consistent signs of positive selection for CD-associated derived alleles were observed in three loci: IL12A, IL18RAP, and SH2B3. For the SH2B3 risk allele, we also show a difference in allele frequency distribution (F(st)) between HapMap phase II populations. Functional investigation of the effect of the SH2B3 genotype in response to lipopolysaccharide and muramyl dipeptide revealed that carriers of the SH2B3 rs3184504*A risk allele showed stronger activation of the NOD2 recognition pathway. This suggests that SH2B3 plays a role in protection against bacteria infection, and it provides a possible explanation for the selective sweep on SH2B3, which occurred sometime between 1200 and 1700 years ago.

Abstract

The amount of research data in the Humanities is increasing at fastspeed. Metadata helps describing and making accessible this data tointerested researchers within and across institutions. While metadatainteroperability is an issue that is being recognised and addressed,the systematic and user-driven provision of annotations and thelinking together of resources into new organisational layers havereceived much less attention. This paper gives an overview of ourevolving technological eScience environment to support suchfunctionality. It describes two tools, ADDIT and ViCoS, which enableresearchers, rather than archive managers, to organise and reorganiseresearch data to fit their particular needs. The two tools, which areembedded into our institute's existing software landscape, are aninitial step towards an eScience environment that gives our scientistseasy access to (multimodal) research data of their interest, andempowers them to structure, enrich, link together, and share such dataas they wish.

Abstract

We describe ViCoS, a tool for constructing and visualising conceptual spaces in the area of language documentation. ViCoS allows users to enrich existing lexical information about the words of a language with conceptual knowledge. Their work towards language-based, informal ontology building must be supported by easy-to-use workflows and supporting software, which we will demonstrate.

Abstract

Psycholinguistic research has typically portrayed speech production as a relatively automatic process. This is because when errors are made, they occur as seldom as one in every thousand words we utter. However, it has long been recognised that we need some form of control over what we are currently saying and what we plan to say. This capacity to both monitor our inner speech and self-correct our speech output has often been assumed to be a property of the language comprehension system. More recently, it has been demonstrated that speech production benefits from interfacing with more general cognitive processes such as selective attention, short-term memory (STM) and online response monitoring to resolve potential conflict and successfully produce the output of a verbal plan. The conditions and levels of representation according to which these more general planning, monitoring and control processes are engaged during speech production remain poorly understood. Moreover, there remains a paucity of information about their neural substrates, despite some of the first evidence of more general monitoring having come from electrophysiological studies of error related negativities (ERNs). While aphasic speech errors continue to be a rich source of information, there has been comparatively little research focus on instances of speech repair. The purpose of this Frontiers Research Topic is to provide a forum for researchers to contribute investigations employing behavioural, neuropsychological, electrophysiological, neuroimaging and virtual lesioning techniques. In addition, while the focus of the research topic is on novel findings, we welcome submission of computational simulations, review articles and methods papers.

Abstract

This study investigates the morphological and morphosyntactic characteristics of hand configurations in signs, particularly in Nederlandse Gebarentaal (NGT). The literature on sign languages in general acknowledges that hand configurations can function as morphemes, more specifically as classifiers , in a subset of signs: verbs expressing the motion, location, and existence of referents (VELMs). These verbs are considered the output of productive sign formation processes. In contrast, other signs in which similar hand configurations appear ( iconic or motivated signs) have been considered to be lexicalized signs, not involving productive processes. This research report shows that meaningful hand configurations have (at least) two very different functions in the grammar of NGT (and presumably in other sign languages, too). First, they are agreement markers on VELMs, and hence are functional elements. Second, they are roots in motivated signs, and thus lexical elements. The latter signs are analysed as root compounds and are formed from various roots by productive processes. The similarities in surface form and differences in morphosyntactic characteristics observed in comparison of VELMs and root compounds are attributed to their different structures and to the sign language interface between grammar and phonetic form

Abstract

This paper discusses the construction of a cross-linguistic, bimodal corpus containing three modes of expression: expressions from two sign languages, speech and gestural expressions in two spoken languages and pantomimic expressions by users of two spoken languages who are requested to convey information without speaking. We discuss some problems and tentative solutions for the annotation of utterances expressing spatial information about referents in these three modes, suggesting a set of comparable codes for the description of both sign and gesture. Furthermore, we discuss the processing of entered annotations in ELAN, e.g. relating descriptive annotations to analytic annotations in all three modes and performing relational searches across annotations on different tiers.

Abstract

The lexicons of many sign languages hold large proportions of “frozen” forms, viz. signs that are generally considered to have been formed productively (as classifier predicates), but that have diachronically undergone processes of lexicalisation. Nederlandse Gebarentaal (Sign Language of the Netherlands; henceforth: NGT) also has many of these signs (Van der Kooij 2002, Zwitserlood 2003). In contrast to the general view on “frozen” forms, a few researchers claim that these signs may be formed according to productive sign formation rules, notably Brennan (1990) for BSL, and Meir (2001, 2002) for ISL. Following these claims, I suggest an analysis of “frozen” NGT signs as morphologically complex, using the framework of Distributed Morphology. The signs in question are derived in a similar way as classifier predicates; hence their similar form (but diverging characteristics). I will indicate how and why the structure and use of classifier predicates and “frozen” forms differ. Although my analysis focuses on NGT, it may also be applicable to other sign languages.

Abstract

This paper reports on an exploration of the ways in which multiple entities are expressed in Turkish Sign Language (TİD). The (descriptive and quantitative) analyses provided are based on a corpus of both spontaneous data and specifically elicited data, in order to provide as comprehensive an account as possible. We have found several devices in TİD for expression of multiple entities, in particular localization, spatial plural predicate inflection, and a specific form used to express multiple entities that are side by side in the same configuration (not reported for any other sign language to date), as well as numerals and quantifiers. In contrast to some other signed languages, TİD does not appear to have a productive system of plural reduplication. We argue that none of the devices encountered in the TİD data is a genuine plural marking device and that the plural interpretation of multiple entity localizations and plural predicate inflections is a by-product of the use of space to indicate the existence or the involvement in an event of multiple entities.

Abstract

Sign language lexicography has thus far been a relatively obscure area in the world of lexicography. Therefore, this article will contain background information on signed languages and the communities in which they are used, on the lexicography of sign languages, the situation in the Netherlands as well as a review of a sign language dictionary that has recently been published in the Netherlands.

Abstract

Although in many respects sign languages have a similar structure to that of spoken languages, the different modalities in which both types of languages are expressed cause differences in structure as well. One of the most striking differences between spoken and sign languages is the influence of the interface between grammar and PF on the surface form of utterances. Spoken language words and phrases are in general characterized by sequential strings of sounds, morphemes and words, while in sign languages we find that many phonemes, morphemes, and even words are expressed simultaneously. A linguistic model should be able to account for the structures that occur in both spoken and sign languages. In this paper, I will discuss the morphological/ morphosyntactic structure of signs in Nederlandse Gebarentaal (Sign Language of the Netherlands, henceforth NGT), with special focus on the components ‘place of articulation’ and ‘handshape’. I will focus on their multiple functions in the grammar of NGT and argue that the framework of Distributed Morphology (DM), which accounts for word formation in spoken languages, is also suited to account for the formation of structures in sign languages. First I will introduce the phonological and morphological structure of NGT signs. Then, I will briefly outline the major characteristics of the DM framework. Finally, I will account for signs that have the same surface form but have a different morphological structure by means of that framework.