bluuebunny/crossref_metadata_2025_split huggingface dataset:
Postoperative Imaging Findings Associated with Transpalpebral Craniotomy Approach to Anterior Cranial Fossa
Authors: Weyer Allison , Thurlow Peter , Aziz Khaled , Happ Erik , Goldberg Michael , Monks Dennis 
Published: July 2017

Background and Purpose The transpalpebral “eyelid” approach is a novel alternative to the traditional ciliary or supraciliary incision for supraorbital frontal craniotomy and access to the anterior cranial fossa. Though a prior publication from our institution has described the surgical approach in detail along with cosmetic and clinical outcomes, postoperative imaging findings have not yet been described. As this surgical technique becomes more widely practiced, it is essential for neuroradiologists, oculoplastic surgeons, and skull base neurosurgeons to be familiar with the expected postoperative imaging findings, especially those that prompt subsequent intervention.
Materials and Methods A retrospective, institutional review board approved review was performed of 102 patients who underwent transpalpebral surgical approach at Allegheny General Hospital from June 2007 through May 2015. Operative reports, pathology reports, preoperative imaging, postoperative imaging, and postoperative clinical documentation were reviewed.
Results Forty-nine percent of patients had solely benign expected postoperative imaging findings, 37% had various atypical findings not requiring further intervention (most commonly asymmetric globe protrusion and bone cement in a paranasal sinus), 6% had findings prompting minimally invasive bedside procedures (most commonly pseudomeningocele), and 8% had findings requiring surgical intervention.
Conclusion The majority of imaging following the transpalpebral approach showed typical, benign findings, such as minimal pneumocephalus and asymmetric globe protrusion. Nonetheless, members of the clinical team should be aware of the small number of findings requiring intervention, especially pseudomeningocele.
Language control in the context of L3 acquisition
Authors: Green David W. 
Published: July 2017

Abstract
Current models of L3 syntactic transfer concern what is transferred during the initial stages. Each delineates a different, and singular, trajectory. From the outset though processes involved in co-opting available syntactic forms and pairing these with novel lexical items admit individual variability. Individual variability challenges the presumption of a single trajectory and so this chapter argues that understanding such variability is core to developing necessary and sufficient models of L3 acquisition. The chapter focuses on language control during L3 speech production as an important source of individual variability. Variability in language control affects speech production in L3 throughout the cycle from communicative intention to overt speech. What changes are needed to the processes of language control, and to the representations subject to their control, so that bilingual speakers may converse in an L3? Speakers must adapt their habits of language control so that they can construct and execute sentence plans in L3. Variability in the nature of such control will affect speech output. Current contexts of L3 use will also affect production in the two prior languages. Adaptive changes in language control induced via the acquisition and use of an L3 also impact on the production processes of the two prior languages. Models of L3 acquisition are ultimately models of multilingual processing.
Transfer or no transfer; that is the question
Authors: Wirbatz Karoline , Buttkewitz Pascal 
Published: July 2017

Abstract
Over the past two decades, various theories have been put forward regarding the role of cross-linguistic influence (CLI) in third language (L3) acquisition. This study aims to test the validity of these hypotheses by investigating the syntactic development from a processing perspective. It examines two different learner groups, the first group consists of English L3 learners with Turkish as their L1 and German as their L2 and the second group consists of English L2 learners with German as their L1. In line with the DMTH, it is predicted that the learners will transfer features from their L1 or their L2 to English, only when they are developmentally ready to acquire the features to be transferred, but not before that.
A bi-directional task-based corpus of learners’ conversational speech
Authors: Garcia Lecumberri M. Luisa , Cooke Martin , Wester Mirjam , Cooke Martin , Wester Mirjam 
Published: July 2017

AbstractThis paper describes a corpus of task-based conversational speech produced by English and Spanish native talkers speaking English and Spanish as both a first and a second language. For cross-language comparability, speech material was elicited using a picture-based task common to each native language group. The bi-directionality of the corpus, stemming from the use of the same speakers and the same language pairing, makes it possible to separate native language factors from the influence of speaking in a first or second language. The potential for studying first language influences and non-native speech using the corpus is illustrated by means of a series of explorations of acoustic, segmental, suprasegmental, and conversational phenomena. These analyses demonstrate the breadth of factors that are amenable to investigation in a conversational corpus and reveal different types of interactions between the first language, the second language, and non-nativeness.
Towards a perceptually assessed corpus of non-native French
Authors: Detey Sylvain , Racine Isabelle 
Published: July 2017

AbstractIn this article, we describe the main methodological steps taken in theInterPhonologie du Français Contemporain(IPFC) research project to build an international corpus of spoken French as a Foreign Language for research and educational purposes. We offer a brief illustration of our approach with a four-session longitudinal study of 12 beginner Japanese learners of French over two years, especially /b/ and /v/ consonants produced in two tasks (repetition and reading of an identical wordlist). Our results illustrate how our perception-based first-screening coding approach provides us with rich information about the developmental profile of the learners, taking into account the task (repetition vs reading), the position in the word (initial, medial, final), the perceptual phonetic characteristics, and ultimately the left and right phonological context of the structure under scrutiny. This work is the first step in an iterative approach to further test experimentally subsets of the non-target-like productions from an acoustic-perceptual point of view.
Culture-generality and culture-specificity of face
Authors: Izadi Ahmad 
Published: July 2017

Abstract
In theorizing face as relational and interactional, Arundale (2010) argues that face
encompasses a dialectic of relational connection and separation, which is culture-general, but can be voiced differently in
different cultures. This paper examines how Arundale’s Face Constituting Theory (FCT) relates to the culture-specific emic
understanding of face in Persian culture in talk in dissertation defense sessions. The data are two argumentative excerpts of
natural interaction from a corpus of 12 PhD defense sessions in Iran. It is first argued that relational connection and separation
is voiced as bonding and differentiation. Second, it is shown how the Persian emic concept of aberu can be
accommodated in FCT. The analyses, grounded in CA and FCT, show how the dialectic of bonding and differentiation is
interactionally achieved in the practices of aberu.
Metaphors of parliamentary budget debates in times of crisis
Authors: Vuković Stamatović Milica 
Published: July 2017

AbstractThe aim of this paper is to explore the metaphoric imprint the global financial crisis has left on the discourse of parliamentary budget debates, which are at the intersection of political and economic discourse, as well as the imprint the MPs have tried to leave on the electorate by carefully selecting metaphors to hide agency, disclaim responsibility and project themselves as saviours. We focus both on conceptual and linguistic metaphors, trying, simultaneously, to account for how the metaphors are developed in the debate. The corpus comprises two budget debates held at the time the financial crisis was in full swing (conducted in the Parliament of Montenegro and the UK House of Commons). The recurrent conceptual metaphors related to the economic crisis were analysed for the two parts of the corpus respectively – the results were compared and similarities were observed in terms of the metaphors used and the discourse strategies behind their selection.
Spatially Dependent Responses of a Large‐River Fish Assemblage to Bank Stabilization and Side Channels
Authors: Reinhold Ann Marie , Bramblett Robert G. , Zale Alexander V. , Poole Geoffrey C. , Roberts David W. 
Published: July 2017

AbstractThe alteration of rivers by anthropogenic bank stabilization to prevent the erosion of economically valuable lands and structures has become commonplace. However, such alteration has ambiguous consequences for fish assemblages, especially in large rivers. Because most large, temperate rivers have impoundments, it can be difficult to separate the influences of bank stabilization structures from those of main‐stem impoundments, especially because both stabilization structures and impoundments can cause side‐channel loss. Few large rivers are free flowing and retain extensive side channels, but the Yellowstone River (our study area) is one such river. We hypothesized that in this river (1) bank stabilization has changed fish assemblage structure by altering habitats, (2) side‐channel availability has influenced fish assemblage structure by providing habitat heterogeneity, and (3) the influences of bank stabilization and side channels on fish assemblages were spatially scale dependent. We developed a spatially explicit framework to test these hypotheses. Fish assemblage structure varied with the extent of bank stabilization and the availability of side channels; however, not all assemblage subsets were influenced. Nevertheless, bank stabilization and side channels had different and sometimes opposite influences on the fish assemblage. The effects of side channels on fish were more consistent and widespread than those of bank stabilization; the catches of more fishes were positively correlated with side‐channel availability than with the extent of bank stabilization. The influences of bank stabilization and side channels on the relative abundances of fish also varied, depending on species and river bend geomorphology. The variation in river morphology probably contributed to the assemblage differences between stabilized and reference river bends; stabilized alluvial pools were deeper than reference alluvial pools, but the depths of stabilized and reference bluff pools did not differ. The strengths of the relationships among fish assemblages, bank stabilization, and side channels were spatially scale dependent; optimum spatial scales ranged from less than 200 m to 3,200 m up‐ and downstream, suggesting that bank stabilization and side channels influenced fish assemblages across multiple spatial scales.Received October 7, 2016; accepted January 23, 2017 Published online July 31, 2017
Effects of Diel Temperature Fluctuation on Growth, Stress Response, and Immune Function of Burbot
Authors: Terrazas Marc M. , Adams Jennifer R. , Sudheesh Ponnerassery S. , Cain Kenneth D. 
Published: July 2017

AbstractNorth American Burbot Lota lota maculosa occupy habitats from deep, cold lakes to prairie streams. Controlled laboratory trials were conducted to evaluate the growth, immune response, and thermal stress physiology of juvenile Burbot subjected to fluctuating, high diel temperatures. Age‐0 Burbot from a captive propagation program associated with population restoration in the Kootenai River, Idaho, were tested in temperature cycles that imitated summer conditions observed in regional stream habitats. The diel temperature cycle for the treatment group varied from 18°C at night to 27°C during the day, whereas the control group was held at a constant temperature of 14°C. We evaluated survival, growth, feed efficiency, heat shock protein 70 (hsp70) levels, hsp70 gene expression, serum lysozyme levels, and proximate body composition in samples taken from fish before, during, and at the completion of the trials. Both treatments had high survival and similar growth rates, but the control group gained significantly more weight and had better feed conversion rates than the treatment group. Mean hsp70 expression and hsp70 abundance were significantly higher in the treatment group but varied between sampling events and between tissue types. Expression of hsp70 in treatment fish was highest on day 15 for muscle tissue (251 times the control value) and on day 30 for liver tissue (1,131 times the control value), with variable abundance of hsp70 at both sampling points. Serum lysozyme levels were not different between treatments. An additional short‐term trial was conducted to evaluate the response of Burbot to upper lethal temperatures, with daily maxima approaching 32°C. Despite being commonly referred to as a coldwater stenotherm, the Burbot displayed resilience to thermal stress, and were able to withstand temperatures exceeding 31°C.Received September 13, 2016; accepted May 12, 2017 Published online July 31, 2017
Clustering de Novo by Gene of Long Reads from Transcriptomics Data
Authors: Marchet Camille , Lecompte Lolita , Da Silva Corinne , Cruaud Corinne , Aury Jean-Marc , Nicolas Jacques , Peterlongo Pierre 
Published: July 2017

AbstractLong-read sequencing currently provides sequences of several thousand base pairs. This allows to obtain complete transcripts, which offers an un-precedented vision of the cellular transcriptome.However the literature is lacking tools to cluster such datade novo, in particular for Oxford Nanopore Technologies reads, because of the inherent high error rate compared to short reads.Our goal is to process reads from whole transcriptome sequencing data accurately and without a reference genome in order to reliably group reads coming from the same gene. Thisde novoapproach is therefore particularly suitable for non-model species, but can also serve as a useful pre-processing step to improve read mapping. Our contribution is both to propose a new algorithm adapted to clustering of reads by gene and a practical and free access tool that permits to scale the complete processing of eukaryotic transcriptomes.We sequenced a mouse RNA sample using the MinION device, this dataset is used to compare our solution to other algorithms used in the context of biological clustering. We demonstrate its is better-suited for transcriptomics long reads. When a reference is available thus mapping possible, we show that it stands as an alternative method that predicts complementary clusters.
3’UTR cleavage of transcripts localized in axons of sympathetic neurons
Authors: Andreassi Catia , Luisier Raphaëlle , Crerar Hamish , Blokzijl-Franke Sasja , Luscombe Nicholas M. , Cuda Giovanni , Gaspari Marco , Riccio Antonella 
Published: July 2017

AbstractThe 3’ untranslated regions (3’UTRs) of messenger RNAs (mRNA) are non-coding sequences that regulate several aspects of mRNA metabolism, including intracellular localisation and translation. Here, we show that in sympathetic neuron axons, the 3’UTRs of many transcripts undergo cleavage, generating both translatable isoforms expressing a shorter 3’UTR, and 3’UTR fragments. 3’end RNA sequencing indicated that 3’UTR cleavage is a potentially widespread event in axons, which is mediated by a protein complex containing the endonuclease Ago2 and the RNA binding protein HuD. Analysis of theInositol monophosphatase 1(Impa1) mRNA revealed that a stem loop structure within the 3’UTR is necessary for Ago2 cleavage. Thus, remodeling of the 3’UTR provides an alternative mechanism that simultaneously regulates local protein synthesis and generates a new class of 3’UTR RNAs with yet unknown functions.
Fundamental limits on dynamic inference from single cell snapshots
Authors: Weinreb Caleb , Wolock Samuel , Tusi Betsabeh K. , Socolovsky Merav , Klein Allon M. 
Published: July 2017

AbstractSingle cell expression profiling reveals the molecular states of individual cells with unprecedented detail. However, because these methods destroy cells in the process of analysis, they cannot measure how gene expression changes over time. But some information on dynamics is present in the data: the continuum of molecular states in the population can reflect the trajectory of a typical cell. Many methods for extracting single cell dynamics from population data have been proposed. However, all such attempts face a common limitation: for any measured distribution of cell states, there are multiple dynamics that could give rise to it, and by extension, multiple possibilities for underlying mechanisms of gene regulation. Here, we describe the aspects of gene expression dynamics that cannot be inferred from a static snapshot alone and identify assumptions necessary to constrain a unique solution for cell dynamics from static snapshots. We translate these constraints into a practical algorithmic approach, Population Balance Analysis (PBA), which makes use of a method from spectral graph theory to solve a class of high dimensional differential equations. We use simulations to show the strengths and limitations of PBA, and then apply it to single-cell profiles of hematopoietic progenitor cells (HPCs). Cell state predictions from this analysis agree with HPC fate assays reported in several papers over the past two decades. By highlighting the fundamental limits on dynamic inference faced by any method, our framework provides a rigorous basis for dynamic interpretation of a gene expression continuum and clarifies best experimental designs for trajectory reconstruction from static snapshot measurements.SignificanceSeeing a snapshot of individuals at different stages of a process can reveal what the process would look like for a single individual over time. Biologists apply this principle to infer temporal sequences of gene expression states in cells from measurements made at a single moment in time. However, these inferences are fundamentally under-determined. Using a conservation law, we enumerate reasons that there is no unique dynamics associated with a single snapshot, limiting our ability to infer gene regulatory mechanisms. We then propose a method for dynamic inference that provides a unique dynamic solution under defined approximations and apply it to data from bone marrow stem cells. Overall, this study introduces formal biophysical approaches to single cell bioinformatics.ClassificationBIOLOGICAL SCIENCES / Systems Biology
Thalamocortical transmission of visual information in awake mice involves phase synchronization and spike synchrony at high gamma frequencies
Authors: McAfee Samuel S. , Liu Yu , Dhamala Mukesh , Heck Detlef H. 
Published: July 2017

Abstract:Synchronization of neuronal spike activity is thought to play a key role in the transmission of information for sensory processing in the brain, and this synchronization is influenced by oscillatory population activity occurring in multiple frequency ranges at multiple stages of sensory pathways. In the neocortex, gamma frequency oscillations appear to play an important role in synchronizing neuronal ensembles and allowing for selective communication between regions, yet relatively little is known about whether gamma oscillations facilitate transmission of sensory information from thalamus to cortex. Here, we investigate the role of gamma oscillations in promoting synchronous spike activity between the visual thalamus (dLGN) and primary visual cortex (V1) in awake mice, a model sensory system with prominent gamma oscillations that are modulated by visual input. We demonstrate that transmission of visual information to cortex involves phase-synchronized oscillations in the high gamma range (50-90Hz), with concomitant millisecond-scale synchronization of thalamic and cortical spike activity. Transition from a full-field gray image to a high-contrast checkerboard image caused gamma activity to rapidly increase in amplitude, frequency, and bandwidth, yet the gamma oscillations in dLGN and V1 maintained a consistent phase relationship. High contrast stimulation also caused an increase in amplitude of oscillations in the beta and low gamma range, but those were not associated with synchronous thalamic activity. These results indicate a role for high gamma oscillations in mediating the functional connectivity between thalamic and cortical neurons in the visual pathway, a similar role to beta oscillations in primates.Significance statement:The mechanisms by which neurons selectively communicate are essential to our understanding of how the brain processes information. Abundant evidence suggests that cortical sensory processing involves the synchronization of high frequency electric field oscillations known as gamma oscillations, which allow groups of neurons to synchronize their spike activity in order to collaboratively process sensory input. Here, we show that oscillations and spikes in the visual thalamocortical pathway of the mouse exhibit synchrony across a broad high gamma frequency range (50-90Hz), suggesting these oscillations play an important role in the relay of visual information to the cortex. This is substantially different from oscillations observed in monkeys, in which gamma is absent in thalamus and beta oscillations support thalamocortical relay.
Social learning strategies for matters of taste
Authors: Analytis Pantelis P. , Barkoczi Daniel , Herzog Stefan M. 
Published: July 2017

AbstractMost choices people make are about “matters of taste” on which there is no universal, objective truth. Nevertheless, people can learn from the experiences of individuals with similar tastes who have already evaluated the available options—a potential harnessed by recommender systems. We mapped recommender system algorithms to models of human judgment and decision making about “matters of fact” and recast the latter as social learning strategies for “matters of taste.” Using computer simulations on a large-scale, empirical dataset, we studied how people could leverage the experiences of others to make better decisions. Our simulation showed that experienced individuals can benefit from relying mostly on the opinions of seemingly similar people; inexperienced individuals, in contrast, cannot reliably estimate similarity and are better off picking the mainstream option despite differences in taste. Crucially, the level of experience beyond which people should switch to similarity-heavy strategies varies substantially across individuals and depends on (i) how mainstream (or alternative) an individual’s tastes are and (ii) the level of dispersion in taste similarity with the other people in the group.