Publications

Abstract

In a visual-world study, we examined spoken-wordrecognition in Spanish. Spanish listeners followed spoken instructions to click on pictures while their eye movements were monitored. When instructed to click on the picture of a door (puerta), they experienced interference from the picture of a pig (p u e r c o ). The same interference from phonologically related items was observed when the displays contained printed names or a combination of pictures with their names printed underneath, although the effect was strongest for displays with printed names. Implications of the finding that the interference effect can be induced with standard pictorial displays as well as with orthographic displays are discussed.

Abstract

Lexical recognition is typically slower in L2 than in L1. Part of the difficulty comes from a not precise enough processing of L2 phonemes. Consequently, L2 listeners fail to eliminate candidate words that L1 listeners can exclude from competing for recognition. For instance, the inability to distinguish /r/ from /l/ in rocket and locker makes for Japanese listeners both words possible candidates when hearing their onset (e.g., Cutler, Weber, and Otake, 2006). The L2 disadvantage can, however, be dispelled: For L2 listeners, but not L1 listeners, L2 speech from a non-native talker with the same language background is known to be as intelligible as L2 speech from a native talker (e.g., Bent and Bradlow, 2003). A reason for this may be that L2 listeners have ample experience with segmental deviations that are characteristic for their own accent. On this account, only phonemic deviations that are typical for the listeners’ own accent will cause spurious lexical activation in L2 listening (e.g., English magic pronounced as megic for Dutch listeners). In this talk, I will present evidence from cross-modal priming studies with a variety of L2 listener groups, showing how the processing of phonemic deviations is accent-specific but withstands fine phonetic differences.

Abstract

This paper provides a description of body part terminology used in Savosavo, a Papuan language of the Solomon Islands. The first part of the paper lists the known terms and discusses their meanings. This is followed by an analysis of their structural properties. Finally, the paper discusses partonomic relations in Savosavo and argues that it is difficult to structure the body part terminology hierarchically, because there is no linguistic evidence for part–whole relations between body parts.

Abstract

This follow-up study of the European Dexamethasone Study was designed to examine the potential harmful effect of adjunctive dexamethasone treatment on long-term neuropsychological outcome in adults with bacterial meningitis. METHODS: Neurological, audiological, and neuropsychological examinations were performed in adults who survived pneumococcal or meningococcal meningitis. RESULTS: Eighty-seven of 99 (88%) eligible patients were included in the follow-up study; 46 (53%) were treated with dexamethasone and 41 (47%) with placebo. Median time between meningitis and testing was 99 months. Neuropsychological evaluation showed no significant differences between patients treated with dexamethasone and placebo. The proportions of patients with persisting neurological sequelae or hearing loss were similar in the dexamethasone and placebo groups. The overall rate of cognitive dysfunction did not differ significantly between patients and control subjects; however, patients after pneumococcal meningitis had a higher rate of cognitive dysfunction (21 vs 6%; p = 0.05) and experienced more impairment of everyday functioning due to physical problems (p = 0.05) than those after meningococcal meningitis. INTERPRETATION: Treatment with adjunctive dexamethasone is not associated with an increased risk for long-term cognitive impairment. Adults who survive pneumococcal meningitis are at significant risk for long-term neuropsychological abnormalities.

Abstract

Objectives To assess cognitive outcome and quality of life in patients with moderate disability after bacterial meningitis as compared to patients with good recovery. Methods Neuropsychological evaluation was performed in 40 adults after pneumococcal meningitis; 20 patients with moderate disability at discharge on the glasgow outcome scale (GOS score 4) and 20 with good recovery (GOS score 5). Results Patients with GOS score 4 had similar test results as compared to patients with GOS score 5 for the neuropsychological domains ‘intelligence’, ‘memory’ and ‘attention and executive functioning’. Patients with GOS score 4 showed less cognitive slowness than patients with GOS score 5. In a linear regression analysis cognitive speed was related to current intelligence, years of education and time since meningitis. Overall performance on the speed composite score correlated significantly with time since meningitis (−0.62; P<0.001). Therefore, difference between both groups may have been related to a longer time between meningitis and testing for GOS four patients (29 vs. 12 months; P<0.001). Conclusions Patients with moderate disability after bacterial meningitis are not at higher risk for neuropsychological abnormalities than patients with good recovery. In addition, cognitive slowness after bacterial meningitis may be reversible in time.

Abstract

In 2001, a point mutation in the forkhead box P2 (FOXP2) coding sequence was identified as the basis of an inherited speech and language disorder suffered by members of the family known as "KE." This mini-symposium review focuses on recent findings and research-in-progress, primarily from five laboratories. Each aims at capitalizing on the FOXP2 discovery to build a neurobiological bridge between molecule and phenotype. Below, we describe genetic through behavioral techniques used currently to investigate FoxP2 in birds, rodents, and humans for discovery of the neural bases of vocal learning and language.

Abstract

This contribution emphasizes the role of multimedia data not only for archiving languages but also for creating opportunities for innovative analyses. In the case at hand, video material was collected as part of the documentation of Akhoe Haiom, a Khoisan language spoken in northern Namibia. The multimedia documentation project brought together linguistic and anthropological work to highlight connections between specialized domains, namely kinship terminology, interrogatives and reciprocals. These connections would have gone unnoticed or undocumented in more conventional modes of language description. It is suggested that such an approach may be particularly appropriate for the documentation of endangered languages since it directs the focus of attention away from isolated traits of languages towards more complex practices of communication that are also frequently threatened with extinction.

Abstract

Even before it became a common place to assume that “the Eskimo have a hundred words for snow” the languages of hunting and gathering people have played an important role in debates about linguistic relativity concerning geographical ontologies. Evidence from languages of hunter-gatherers has been used in radical relativist challenges to the overall notion of a comparative typology of generic natural forms and landscapes as terms of reference. It has been invoked to emphasize a personalized relationship between humans and the non-human world. It is against this background that this contribution discusses the landscape terminology of ≠Akhoe Hai//om, a Khoisan language spoken by “Bushmen” in Namibia. Landscape vocabulary is ubiquitous in ≠Akhoe Hai//om due to the fact that the landscape plays a critical role in directionals and other forms of “topographical gossip” and due to merges between landscape and group terminology. This system of landscape-cum-group terminology is outlined and related to the use of place names in the area.

Abstract

Pointing gestures are recognised to be a primary manifestation of human social cognition and communicative capacity. The goal of this task is to collect empirical descriptions of pointing practices in different cultural settings.

Abstract

Understanding language always occurs within a situational context and, therefore, often implies combining streams of information from different domains and modalities. One such combination is that of spoken language and visual information, which are perceived together in a variety of ways during everyday communication. Here we investigate whether and how words and pictures differ in terms of their neural correlates when they are integrated into a previously built-up sentence context. This is assessed in two experiments looking at the time course (measuring event-related potentials, ERPs) and the locus (using functional magnetic resonance imaging, fMRI) of this integration process. We manipulated the ease of semantic integration of word and/or picture to a previous sentence context to increase the semantic load of processing. In the ERP study, an increased semantic load led to an N400 effect which was similar for pictures and words in terms of latency and amplitude. In the fMRI study, we found overlapping activations to both picture and word integration in the left inferior frontal cortex. Specific activations for the integration of a word were observed in the left superior temporal cortex. We conclude that despite obvious differences in representational format, semantic information coming from pictures and words is integrated into a sentence context in similar ways in the brain. This study adds to the growing insight that the language system incorporates (semantic) information coming from linguistic and extralinguistic domains with the same neural time course and by recruitment of overlapping brain areas.

Abstract

Although generally studied in isolation, language and action often co-occur in everyday life. Here we investigated one particular form of simultaneous language and action, namely speech and gestures that speakers use in everyday communication. In a functional magnetic resonance imaging study, we identified the neural networks involved in the integration of semantic information from speech and gestures. Verbal and/or gestural content could be integrated easily or less easily with the content of the preceding part of speech. Premotor areas involved in action observation (Brodmann area [BA] 6) were found to be specifically modulated by action information "mismatching" to a language context. Importantly, an increase in integration load of both verbal and gestural information into prior speech context activated Broca's area and adjacent cortex (BA 45/47). A classical language area, Broca's area, is not only recruited for language-internal processing but also when action observation is integrated with speech. These findings provide direct evidence that action and language processing share a high-level neural integration system.

Abstract

According to theories of embodied cognition, understanding a verb like throw involves unconsciously simulating the action of throwing, using areas of the brain that support motor planning. If understanding action words involves mentally simulating one’s own actions, then the neurocognitive representation of word meanings should differ for people with different kinds of bodies, who perform actions in systematically different ways. In a test of the body-specificity hypothesis, we used functional magnetic resonance imaging to compare premotor activity correlated with action verb understanding in right- and left-handers. Righthanders preferentially activated the left premotor cortex during lexical decisions on manual-action verbs (compared with nonmanual-action verbs), whereas left-handers preferentially activated right premotor areas. This finding helps refine theories of embodied semantics, suggesting that implicit mental simulation during language processing is body specific: Right- and lefthanders, who perform actions differently, use correspondingly different areas of the brain for representing action verb meanings.

Abstract

The left-hemisphere dominance for language is a core example of the functional specialization of the cerebral hemispheres. The degree of left-hemisphere dominance for language depends on hand preference: Whereas the majority of right-handers show left-hemispheric language lateralization, this number is reduced in left-handers. Here, we assessed whether handedness analogously has an influence upon lateralization in the visual system. Using functional magnetic resonance imaging, we localized 4 more or less specialized extrastriate areas in left- and right-handers, namely fusiform face area (FFA), extrastriate body area (EBA), fusiform body area (FBA), and human motion area (human middle temporal [hMT]). We found that lateralization of FFA and EBA depends on handedness: These areas were right lateralized in right-handers but not in left-handers. A similar tendency was observed in FBA but not in hMT. We conclude that the relationship between handedness and hemispheric lateralization extends to functionally lateralized parts of visual cortex, indicating a general coupling between cerebral lateralization and handedness. Our findings indicate that hemispheric specialization is not fixed but can vary considerably across individuals even in areas engaged relatively early in the visual system.

Abstract

Although language is an effective vehicle for communication, it is unclear how linguistic and communicative abilities relate to each other. Some researchers have argued that communicative message generation involves perspective taking (mentalizing), and—crucially—that mentalizing depends on language. We employed a verbal communication paradigm to directly test whether the generation of a communicative action relies on mentalizing and whether the cerebral bases of communicative message generation are distinct from parts of cortex sensitive to linguistic variables. We found that dorsomedial prefrontal cortex, a brain area consistently associated with mentalizing, was sensitive to the communicative intent of utterances, irrespective of linguistic difficulty. In contrast, left inferior frontal cortex, an area known to be involved in language, was sensitive to the linguistic demands of utterances, but not to communicative intent. These findings show that communicative and linguistic abilities rely on cerebrally (and computationally) distinct mechanisms

Abstract

Here we review evidence from cognitive neuroscience for a tight relation between language and action in the brain. We focus on two types of relation between language and action. First, we investigate whether the perception of speech and speech sounds leads to activation of parts of the cortical motor system also involved in speech production. Second, we evaluate whether understanding action-related language involves the activation of parts of the motor system. We conclude that whereas there is considerable evidence that understanding language can involve parts of our motor cortex, this relation is best thought of as inherently flexible. As we explain, the exact nature of the input as well as the intention with which language is perceived influences whether and how motor cortex plays a role in language processing.

Abstract

Language is often perceived together with visual information. This raises the question on how the brain integrates information conveyed in visual and/or linguistic format during spoken language comprehension. In this study we investigated the dynamics of semantic integration of visual and linguistic information by means of time-frequency analysis of the EEG signal. A modified version of the N400 paradigm with either a word or a picture of an object being semantically incongruous with respect to the preceding sentence context was employed. Event-Related Potential (ERP) analysis showed qualitatively similar N400 effects for integration of either word or picture. Time-frequency analysis revealed early specific decreases in alpha and gamma band power for linguistic and visual information respectively. We argue that these reflect a rapid context-based analysis of acoustic (word) or visual (picture) form information. We conclude that although full semantic integration of linguistic and visual information occurs through a common mechanism, early differences in oscillations in specific frequency bands reflect the format of the incoming information and, importantly, an early context-based detection of its congruity with respect to the preceding language context

Abstract

Co-speech gestures embody a form of manual action that is tightly coupled to the language system. As such, the co-occurrence of speech and co-speech gestures is an excellent example of the interplay between language and action. There are, however, other ways in which language and action can be thought of as closely related. In this paper we will give an overview of studies in cognitive neuroscience that examine the neural underpinnings of links between language and action. Topics include neurocognitive studies of motor representations of speech sounds, action-related language, sign language and co-speech gestures. It will be concluded that there is strong evidence on the interaction between speech and gestures in the brain. This interaction however shares general properties with other domains in which there is interplay between language and action.

Abstract

According to embodied theories of language, people understand a verb like throw, at least in part, by mentally simulating throwing. This implicit simulation is often assumed to be similar or identical to motor imagery. Here we used fMRI totest whether implicit simulations of actions during language understanding involve the same cortical motor regions as explicit motor imagery Healthy participants were presented with verbs related to hand actions (e.g., to throw) and nonmanual actions (e.g., to kneel). They either read these verbs (lexical decision task) or actively imagined performing the actions named by the verbs (imagery task). Primary motor cortex showd effector-specific activation during imagery, but not during lexical decision. Parts of premotor cortex distinguished manual from nonmanual actions during both lexical decision and imagery, but there was no overlap or correlation between regions activated during the two tasks. These dissociations suggest that implicit simulation and explicit imagery cued by action verbs may involve different types of motor representations and that the construct of “mental simulation” should be distinguished from “mental imagery” in embodied theories of language.

Abstract

The human capacity to communicate has been hypothesized to be causally dependent upon language. Intuitively this seems plausible since most communication relies on language. Moreover, intention recognition abilities (as a necessary prerequisite for communication) and language development seem to co-develop. Here we review evidence from neuroimaging as well as from neuropsychology to evaluate the relationship between communicative and linguistic abilities. Our review indicates that communicative abilities are best considered as neurally distinct from language abilities. This conclusion is based upon evidence showing that humans rely on different cortical systems when designing a communicative message for someone else as compared to when performing core linguistic tasks, as well as upon observations of individuals with severe language loss after extensive lesions to the language system, who are still able to perform tasks involving intention understanding

Abstract

Over recent years small submicroscopic DNA copy-number variants (CNVs) have been highlighted as an important source of variation in the human genome, human phenotypic diversity and disease susceptibility. Consequently, there is a pressing need for the development of methods that allow the efficient, accurate and cheap measurement of genomic copy number polymorphisms in clinical cohorts. We have developed a simple competitive PCR based method to determine DNA copy number which uses the entire genome of a single chimpanzee as a competitor thus eliminating the requirement for competitive sequences to be synthesized for each assay. This results in the requirement for only a single reference sample for all assays and dramatically increases the potential for large numbers of loci to be analysed in multiplex. In this study we establish proof of concept by accurately detecting previously characterized mutations at the PARK2 locus and then demonstrating the potential of quantitative interspecies competitive PCR (qicPCR) to accurately genotype CNVs in association studies by analysing chromosome 22q11 deletions in a sample of previously characterized patients and normal controls.

Abstract

In foreign-accented speech, listeners have to handle noticeable deviations from the standard pronunciation of a target language. Three cross-modal priming experiments investigated how short- and long-term experiences with a foreign accent influence word recognition by native listeners. In experiment 1, German-accented words were presented to Dutch listeners who had either extensive or limited prior experience with German-accented Dutch. Accented words either contained a diphthong substitution that deviated acoustically quite largely from the canonical form (huis [hys], "house", pronounced as [hoys]), or that deviated acoustically to a lesser extent (lijst [lst], "list", pronounced as [lst]). The mispronunciations never created lexical ambiguity in Dutch. While long-term experience facilitated word recognition for both types of substitutions, limited experience facilitated recognition only of words with acoustically smaller deviations. In experiment 2, Dutch listeners with limited experience listened to the German speaker for 4 min before participating in the cross-modal priming experiment. The results showed that speaker-specific learning effects for acoustically large deviations can be obtained already after a brief exposure, as long as the exposure contains evidence of the deviations. Experiment 3 investigates whether these short-term adaptation effects for foreign-accented speech are speaker-independent.

Abstract

The modality learning effect, according to Mayer (2001), proposes that learning is enhanced when information is presented in both the visual and auditory domain (e.g., pictures and spoken information), compared to presenting information solely in the visual channel (e.g., pictures and written text). Most of the evidence for this effect comes from adults in a laboratory setting. Therefore, we tested the modality effect with 80 children in the highest grade of elementary school, in a naturalistic setting. In a between-subjects design children either saw representational pictures with speech or representational pictures with text. Retention and transfer knowledge was tested at three moments: immediately after the intervention, one day after, and after one week. The present study did not find any evidence for a modality effect in children when the lesson is learner-paced. Instead, we found a reversed modality effect directly after the intervention for retention. A reversed modality effect was also found for the transfer questions one day later. This effect was robust, even when controlling for individual differences.

Abstract

In the emerging e-Science scenario users should be able to easily combine data resources and tools/services; and machines should automatically be able to trace paths and carry out interpretations. Users who want to participate need to move from a down-load first to a cyberinfrastructure paradigm, thus increasing their dependency on the seamless operation of all components in the Internet. Such a scenario is inherently complex and requires compliance to guidelines and standards to keep it working smoothly. Only a change in our culture of dealing with research data and awareness about the way we do data lifecycle management will lead to success. Since we have so many legacy resources that are not compliant with the required guidelines, since we need to admit obvious problems in particular with standardization in the area of semantics and since it will take much time to establish trust at the side of researchers, the e-Science scenario can only be achieved stepwise which will take much time.

Abstract

Languages are among the most complex systems that evolution has created. With an unforeseen speed many of these unique results of evolution are currently disappearing: every two weeks one of the 6500 still spoken languages is dying and many are subject to extreme changes due to globalization. Experts understood the need to document the languages and preserve the cultural and linguistic treasures embedded in them for future generations. Also linguistic theory will need to consider the variation of the linguistic systems encoded in languages to improve our understanding of how human minds process language material, thus accessibility to all types of resources is increasingly crucial. Deeper insights into human language processing and a higher degree of integration and interoperability between resources will also improve our language processing technology. The DOBES programme is focussing on the documentation and preservation of language material. The Max Planck Institute developed the Language Archiving Technology to help researchers when creating, archiving and accessing language resources. The recently started CLARIN research infrastructure has as main goals to achieve a broad visibility and an easy
accessibility of language resources.

Abstract

Utilization of computer tools in linguistic research has gained importance with the maturation of media frameworks for the handling of digital audio and video. The increased use of these tools in gesture, sign language and multimodal interaction studies has led to stronger requirements on the flexibility, the efficiency and in particular the time accuracy of annotation tools. This paper describes the efforts made to make ELAN a tool that meets these requirements, with special attention to the developments in the area of time accuracy. In subsequent sections an overview will be given of other enhancements in the latest versions of ELAN, that make it a useful tool in multimodality research.

Abstract

A number of serious reasons will convince an increasing amount of researchers to store their relevant material in centers which we will call "language resource archives". They combine the duty of taking care of long-term preservation as well as the task to give access to their material to different user groups. Access here is meant in the sense that an active interaction with the data will be made possible to support the integration of new data, new versions or commentaries of all sort. Modern Language Resource Archives will have to adhere to a number of basic principles to fulfill all requirements and they will have to be involved in federations to create joint language resource domains making it even more simple for the researchers to access the data. This paper makes an attempt to formulate the essential pillars language resource archives have to adhere to.

Abstract

In this paper, we describe the core pillars of a large archive oflanguage material recorded worldwide partly about languages that are highly endangered. The bases for the documentation of these languages are audio/video recordings which are then annotated at several linguistic layers. The digital age completely changed the requirements of long-term preservation and it is discussed how the archive met these new challenges. An extensive solution for data replication has been worked out to guarantee bit-stream preservation. Due to an immediate conversion of the incoming data to standards -based formats and checks at upload time lifecycle management of all 50 Terabyte of data is widely simplified. A suitable metadata framework not only allowing users to describe and discover resources, but also allowing them to organize their resources is enabling the management of this amount of resources very efficiently. Finally, it is the Language Archiving Technology software suite which allows users to create, manipulate, access and enrich all archived resources given that they have access permissions.

Abstract

Currently, research infrastructures are being designed and established in manydisciplines since they all suffer from an enormous fragmentation of theirresources and tools. In the domain of language resources and tools the CLARINinitiative has been funded since 2008 to overcome many of the integration andinteroperability hurdles. CLARIN can build on knowledge and work from manyprojects that were carried out during the last years and wants to build stableand robust services that can be used by researchers. Here service centres willplay an important role that have the potential of being persistent and thatadhere to criteria as they have been established by CLARIN. In the last year ofthe so-called preparatory phase these centres are currently developing four usecases that can demonstrate how the various pillars CLARIN has been working oncan be integrated. All four use cases fulfil the criteria of beingcross-national.

Abstract

Brain processing depends on the interactions between neuronal groups. Those interactions are governed by the pattern of anatomical connections and by yet unknown mechanisms that modulate the effective strength of a given connection. We found that the mutual influence among neuronal groups depends on the phase relation between rhythmic activities within the groups. Phase relations supporting interactions between the groups preceded those interactions by a few milliseconds, consistent with a mechanistic role. These effects were specific in time, frequency, and space, and we therefore propose that the pattern of synchronization flexibly determines the pattern of neuronal interactions.

Abstract

This auditory lexical decision study shows that cohort entropies, conditional root uniqueness points, and morphological family size all contribute to the dynamics of the auditory comprehension of prefixed words. Three entropy measures calculated for different positions in the stem of Dutch prefixed words revealed facilitation for higher entropies, except at the point of disambiguation, where we observed inhibition. Morphological family size was also facilitatory, but only for prefixed words in which the conditional root uniqueness point coincided with the conventional uniqueness point. For words with early conditional disambiguation, in contrast, only the morphologically related words that were onset-aligned with the target word facilitated lexical decision.

Abstract

We performed a resting-state functional connectivity study to investigate directly the functional correlations within the perisylvian language networks by seeding from 3 subregions of Broca's complex (pars opercularis, pars triangularis, and pars orbitalis) and their right hemisphere homologues. A clear topographical functional connectivity pattern in the left middle frontal, parietal, and temporal areas was revealed for the 3 left seeds. This is the first demonstration that a functional connectivity topology can be observed in the perisylvian language networks. The results support the assumption of the functional division for phonology, syntax, and semantics of Broca's complex as proposed by the memory, unification, and control (MUC) model and indicated a topographical functional organization in the perisylvian language networks, which suggests a possible division of labor for phonological, syntactic, and semantic function in the left frontal, parietal, and temporal areas.

Abstract

In the present study, event-related brain potentials (ERP) were recorded to investigate the role of pitch accent and lexical tone in spoken discourse comprehension. Chinese was used as material to explore the potential difference in the nature and time course of brain responses to sentence meaning as indicated by pitch accent and to lexical meaning as indicated by tone. In both cases, the pitch contour of critical words was varied. The results showed that both inconsistent pitch accent and inconsistent lexical tone yielded N400 effects, and there was no interaction between them. The negativity evoked by inconsistent pitch accent had the some topography as that evoked by inconsistent lexical tone violation, with a maximum over central–parietal electrodes. Furthermore, the effect for the combined violations was the sum of effects for pure pitch accent and pure lexical tone violation. However, the effect for the lexical tone violation appeared approximately 90 ms earlier than the effect of the pitch accent violation. It is suggested that there might be a correspondence between the neural mechanism underlying pitch accent and lexical meaning processing in context. They both reflect the integration of the current information into a discourse context, independent of whether the current information was sentence meaning indicated by accentuation, or lexical meaning indicated by tone. In addition, lexical meaning was processed earlier than sentence meaning conveyed by pitch accent during spoken language processing.

Abstract

Although sign language-using communities exist in all areas of the world, few sign languages have been documented in detail. Sign languages occur in a variety of sociocultural contexts, ranging from sign languages used in closed village communities to officially recognized national sign languages. They may be grouped into language families on historical grounds or may participate in various language contact situations. Systematic cross-linguistic comparison reveals both significant structural similarities and important typological differences between sign languages. Focusing on information from non-Western countries, this article provides an overview of the sign languages of the world.

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

Genome-wide association studies using thousands to hundreds of thousands of single nucleotide polymorphism (SNP) markers and region-wide association studies using a dense panel of SNPs are already in use to identify disease susceptibility genes and to predict disease risk in individuals. Because these tasks become increasingly important, three different data sets were provided for the Genetic Analysis Workshop 15, thus allowing examination of various novel and existing data mining methods for both classification and identification of disease susceptibility genes, gene by gene or gene by environment interaction. The approach most often applied in this presentation group was random forests because of its simplicity, elegance, and robustness. It was used for prediction and for screening for interesting SNPs in a first step. The logistic tree with unbiased selection approach appeared to be an interesting alternative to efficiently select interesting SNPs. Machine learning, specifically ensemble methods, might be useful as pre-screening tools for large-scale association studies because they can be less prone to overfitting, can be less computer processor time intensive, can easily include pair-wise and higher-order interactions compared with standard statistical approaches and can also have a high capability for classification. However, improved implementations that are able to deal with hundreds of thousands of SNPs at a time are required.

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

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

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.