Miracle-dz/UniFAR-FTUs huggingface dataset:
Using prosodic clues to decide when to produce back-channel utterances

Back-channel feedback is required in order to build spoken dialog systems that are responsive. This paper reports a model of back-channel feedback in Japanese dialog. It turns out that a low pitch region is a good clue that the speaker is ready for back-channel feedback. A rule based on this fact matches corpus data on respondents' production of back-channel feedback. A system based on this rule meets the expectations of live speakers, sometimes well enough to fool them into thinking they are conversing with a human.
Carotid arterial stiffness and risk of incident cerebral microbleeds in older people: the Age, Gene/Environment Susceptibility (AGES)-Reykjavik study.

OBJECTIVE Age and high blood pressure are major risk factors for cerebral microbleeds (CMBs). However, the underlying mechanisms remain unclear and arterial stiffness may be important. We investigated whether carotid arterial stiffness is associated with incidence and location of CMBs. APPROACH AND RESULTS In the prospective, population-based Age, Gene/Environment Susceptibility (AGES)-Reykjavik study, 2512 participants aged 66 to 93 years underwent a baseline brain MRI examination and carotid ultrasound in 2002 to 2006 and returned for a repeat brain MRI in 2007 to 2011. Common carotid arterial stiffness was assessed using a standardized protocol and expressed as carotid arterial strain, distensibility coefficient, and Young elastic modulus. Modified Poisson regression was applied to relate carotid arterial stiffness parameters to CMB incidence. During a mean follow-up of 5.2 years, 463 people (18.4%) developed new CMBs, of whom 292 had CMBs restricted to lobar regions and 171 had CMBs in a deep or infratentorial region. After adjusting for age, sex, and follow-up interval, arterial stiffness measures were associated with incident CMBs (risk ratio per SD decrease in carotid arterial strain, 1.11 [95% confidence interval, 1.01-1.21]; per SD decrease in natural log-transformed distensibility coefficient, 1.14 [1.05-1.24]; and per SD increase in natural log-transformed Young elastic modulus, 1.13 [1.04-1.23]). These measures were also significantly associated with incident deep CMBs (1.18 [1.02-1.37]; 1.24 [1.08-1.42]; and 1.23 [1.07-1.42]) but not with lobar CMBs. When further adjusted for blood pressure and other baseline vascular risk factors, carotid plaque, prevalent CMBs, subcortical infarcts, and white matter hyperintensities, the associations persisted. CONCLUSIONS Our findings support the hypothesis that localized increases in carotid arterial stiffness may contribute to the development of CMBs, especially in a deep location attributable to hypertension.
Lessons learned from automating tests for an operations support system

We present experience gained in automating tests for an operations support system. A major portion of the effort was devoted to extending a commercial test tool so that testers could easily manipulate graphical user interface (GUI) objects on two implementations of the application. For this purpose, we developed a test automation library as support infrastructure for writing tests. The challenges and tradeoffs are discussed such as simplicity/complexity for a tester versus a library developer, hiding/exposing window hierarchy to the tester, providing common methods for different types of GUI objects, transparently manipulating custom GUI widgets, and coping with data‐dependent test cases. We discuss the requirements of test code reusability, maintainability, and portability, and describe the solutions we found. In addition, we offer observations about benefits and pitfalls of test automation, our recommendations for maximizing return on investment, and results from automating a variety of tests. Copyright © 2002 John Wiley & Sons, Ltd.
Parallel Evolution of Polydactyly Traits in Chinese and European Chickens

Polydactyly is one of the most common hereditary congenital limb malformations in chickens and other vertebrates. The zone of polarizing activity regulatory sequence (ZRS) is critical for the development of polydactyly. The causative mutation of polydactyly in the Silkie chicken has been mapped to the ZRS; however, the causative mutations of other chicken breeds are yet to be established. To understand whether the same mutation decides the polydactyly phenotype in other chicken breeds, we detected the single-nucleotide polymorphism in 26 different chicken breeds, specifically, 24 Chinese indigenous breeds and 2 European breeds. The mutation was found to have fully penetrated chickens with polydactyly in China, indicating that it is causative for polydactyly in Chinese indigenous chickens. In comparison, the mutation showed no association with polydactyly in Houdan chickens, which originate from France, Europe. Based on the different morphology of polydactyly in Chinese and European breeds, we assumed that the trait might be attributable to different genetic foundations. Therefore, we subsequently performed genome-wide association analysis (GWAS) to locate the region associated with polydactyly. As a result, a ~0.39 Mb genomic region on GGA2p was identified. The region contains six candidate genes, with the causative mutation found in Chinese indigenous breeds also being located in this region. Our results demonstrate that polydactyly in chickens from China and Europe is caused by two independent mutation events that are closely located in the chicken genome.
Robust background subtraction and maintenance

Background subtraction is one of the main techniques to extract moving objects from background scenes. A mixture of Gaussians is a common model for background subtraction that has been used in many applications. However modelling background pixels using this model results into a low-level process at pixel level. Some of its main drawbacks are: a subtracted (moving object) region may contain holes; it cannot solve partial occlusion problems, and it requires updates in cases of shadows or sudden changes in the scene. We present a multi-layered mixture of Gaussians model named PixelMap. We combine the mixture of Gaussians model with concepts defined by region level and frame level considerations. Our experimental results show that our method improved the accuracy of extracting moving objects from background. A single stationary camera has been used.
Unconstrained Bengali handwriting recognition with recurrent models

This paper presents a pioneering attempt for developing a recurrent neural net based connectionist system for unconstrained Bengali offline handwriting recognition. The major challenge in configuring such a classification system for a complex script like Bengali is to effectively define the character classes. A novel way of defining character classes is introduced making the recognition problem suitable for using a recurrent model. Indeed, it has to deal with more than nine hundred character classes for which the occurrence probability is very skewed in the language. An off-the-shelf BLSTM-CTC recognizer is used. An open-source dataset is developed for unconstrained Bengali offline handwriting recognition. The dataset contains 2,338 handwritten text lines consisting of about 21,000 word. Experiment shows that with the new definition of character classes the BLSTM-CTC provides an impressive performance for unconstrained Bengali offline handwriting recognition. The character level recognition accuracy is 75.40% without doing any post-processing on the BLSTM-CTC output. Among the 24.60% character level errors, the substitution, deletion and insertion errors are 18.91%, 4.69% and 0.98%, respectively.
Clinical and Microbiological Characteristics of Eggerthella lenta Bacteremia

ABSTRACT Eggerthella lenta is an emerging pathogen that has been underrecognized due to historical difficulties with phenotypic identification. Until now, its pathogenicity, antimicrobial susceptibility profile, and optimal treatment have been poorly characterized. In this article, we report the largest cohort of patients with E. lenta bacteremia to date and describe in detail their clinical features, microbiologic characteristics, treatment, and outcomes. We identified 33 patients; the median age was 68 years, and there was no gender predominance. Twenty-seven patients (82%) had serious intra-abdominal pathology, often requiring a medical procedure. Of those who received antibiotics (28/33, 85%), the median duration of treatment was 21.5 days. Mortality from all causes was 6% at 7 days, 12% at 30 days, and 33% at 1 year. Of 26 isolates available for further testing, all were identified as E. lenta by both commercially available matrix-assisted laser desorption ionization–time of flight mass spectrometry (MALDI-TOF MS) systems, and none were found to harbor a vanA or vanB gene. Of 23 isolates which underwent susceptibility testing, all were susceptible to amoxicillin-clavulanate, cefoxitin, metronidazole, piperacillin-tazobactam, ertapenem, and meropenem, 91% were susceptible to clindamycin, 74% were susceptible to moxifloxacin, and 39% were susceptible to penicillin.
miR-18a Inhibits CDC42 and Plays a Tumour Suppressor Role in Colorectal Cancer Cells

The miR-17-92 cluster of microRNAs is elevated in colorectal cancer, and has a causative role in cancer development. Of the six miR-17-92 cluster members, miR-19a and b in particular are key promoters of cancer development and cell proliferation, while preliminary evidence suggests that miR-18a may act in opposition to other cluster members to decrease cell proliferation. It was hypothesised that miR-18a may have a homeostatic function in helping to contain the oncogenic effect of the entire miR-17-92 cluster, and that elevated miR-17-92 cluster activity without a corresponding increase in miR-18a may promote colorectal tumour progression. In colorectal cancer samples and corresponding normal colorectal mucosa, miR-18a displayed lower overall expression than other miR-17-92 cluster members. miR-18a was shown to have an opposing role to other miR-17-92 cluster members, in particular the key oncogenic miRNAs, miR-19a and b. Transfection of HCT116 and LIM1215 colorectal cancer cell lines with miR-18a mimics decreased proliferation, while a miR-18a inhibitor increased proliferation. miR-18a was also responsible for decreasing cell migration, altering cell morphology, inducing G1/S phase cell cycle arrest, increasing apoptosis, and enhancing the action of a pro-apoptotic agent. CDC42, a mediator of the PI3K pathway, was identified as a novel miR-18a target. Overexpression of miR-18a reduced CDC42 expression, and a luciferase assay confirmed that miR-18a directly targets the 3′UTR of CDC42. miR-18a mimics had a similar effect on proliferation as a small molecule inhibitor of CDC42. Inhibition of CDC42 expression is likely to be a key mechanism by which miR-18a impairs cancer cell growth, with a target protector experiment revealing miR-18a influences proliferation via direct inhibition of CDC42. Inhibition of CCND1 by miR-18a may also assist in this growth-suppression effect. The homeostatic function of miR-18a within the miR-17-92 cluster in colorectal cancer cells may be achieved through suppression of CDC42 and the PI3K pathway.
Identification of Galanin and Its Receptor GalR1 as Novel Determinants of Resistance to Chemotherapy and Potential Biomarkers in Colorectal Cancer

Purpose: A major factor limiting the effective clinical management of colorectal cancer (CRC) is resistance to chemotherapy. Therefore, the identification of novel, therapeutically targetable mediators of resistance is vital. Experimental design: We used a CRC disease-focused microarray platform to transcriptionally profile chemotherapy-responsive and nonresponsive pretreatment metastatic CRC liver biopsies and in vitro samples, both sensitive and resistant to clinically relevant chemotherapeutic drugs (5-FU and oxaliplatin). Pathway and gene set enrichment analyses identified candidate genes within key pathways mediating drug resistance. Functional RNAi screening identified regulators of drug resistance. Results: Mitogen-activated protein kinase signaling, focal adhesion, cell cycle, insulin signaling, and apoptosis were identified as key pathways involved in mediating drug resistance. The G-protein–coupled receptor galanin receptor 1 (GalR1) was identified as a novel regulator of drug resistance. Notably, silencing either GalR1 or its ligand galanin induced apoptosis in drug-sensitive and resistant cell lines and synergistically enhanced the effects of chemotherapy. Mechanistically, GalR1/galanin silencing resulted in downregulation of the endogenous caspase-8 inhibitor FLIPL, resulting in induction of caspase-8–dependent apoptosis. Galanin mRNA was found to be overexpressed in colorectal tumors, and importantly, high galanin expression correlated with poor disease-free survival of patients with early-stage CRC. Conclusion: This study shows the power of systems biology approaches to identify key pathways and genes that are functionally involved in mediating chemotherapy resistance. Moreover, we have identified a novel role for the GalR1/galanin receptor–ligand axis in chemoresistance, providing evidence to support its further evaluation as a potential therapeutic target and biomarker in CRC. Clin Cancer Res; 18(19); 5412–26. ©2012 AACR.
Creating Relational Data from Unstructured and Ungrammatical Data Sources

In order for agents to act on behalf of users, they will have to retrieve and integrate vast amounts of textual data on the World Wide Web. However, much of the useful data on the Web is neither grammatical nor formally structured, making querying difficult. Examples of these types of data sources are online classifieds like Craigslist and auction item listings like eBay. We call this unstructured, ungrammatical data "posts. " The unstructured nature of posts makes query and integration difficult because the attributes are embedded within the text. Also, these attributes do not conform to standardized values, which prevents queries based on a common attribute value. The schema is unknown and the values may vary dramatically making accurate search difficult. Creating relational data for easy querying requires that we define a schema for the embedded attributes and extract values from the posts while standardizing these values. Traditional information extraction (IE) is inadequate to perform this task because it relies on clues from the data, such as structure or natural language, neither of which are found in posts. Furthermore, traditional information extraction does not incorporate data cleaning, which is necessary to accurately query and integrate the source. The two-step approach described in this paper creates relational data sets from unstructured and ungrammatical text by addressing both issues. To do this, we require a set of known entities called a "reference set. " The first step aligns each post to each member of each reference set. This allows our algorithm to define a schema over the post and include standard values for the attributes defined by this schema. The second step performs information extraction for the attributes, including attributes not easily represented by reference sets, such as a price. In this manner we create a relational structure over previously unstructured data, supporting deep and accurate queries over the data as well as standard values for integration. Our experimental results show that our technique matches the posts to the reference set accurately and efficiently and outperforms state-of-the-art extraction systems on the extraction task from posts.
Measurement Analysis and Channel Modeling for TOA-Based Ranging in Tunnels

A robust and accurate positioning solution is required to increase the safety in GPS-denied environments. Although there is a lot of available research in this area, little has been done for confined environments such as tunnels. Therefore, we organized a measurement campaign in a basement tunnel of Linköping university, in which we obtained ultra-wideband (UWB) complex impulse responses for line-of-sight (LOS), and three non-LOS (NLOS) scenarios. This paper is focused on time-of-arrival (TOA) ranging since this technique can provide the most accurate range estimates, which are required for range-based positioning. We describe the measurement setup and procedure, select the threshold for TOA estimation, analyze the channel propagation parameters obtained from the power delay profile (PDP), and provide statistical model for ranging. According to our results, the rise-time should be used for NLOS identification, and the maximum excess delay should be used for NLOS error mitigation. However, the NLOS condition cannot be perfectly determined, so the distance likelihood has to be represented in a Gaussian mixture form. We also compared these results with measurements from a mine tunnel, and found a similar behavior.
How novices tackle their first lines of code in an IDE: analysis of programming session traces

While computing educators have put plenty of effort into researching and developing programming environments that make it easier for students to create their first programs, these tools often have only little resemblance with the tools used in the industry. We report on a study, where students with no previous programming experience started to program directly using an industry strength programming environment. The programming environment was augmented with logging capability that recorded every keystroke and event within the system, which provided a view on how the novices tackle their first lines of code. Our results show that while at first, the students struggle with syntax -- as is typical with learning a new language -- no evidence can be found that suggests that learning to use the programming environment is hard. In a two-week period, the students learned to use the basic features of the programming environment such as specific shortcuts. Although we observed students using copy-paste-programming relatively often, most of the pasted code is from their own previous work. Finally, when considering the compilation errors and error distributions, we hypothesize that the errors are a product of three factors; the exercises, the environment, and the data logging granularity.
An eight‐year study of online lecture use in a medical gross anatomy and embryology course

Online lectures have been used in lieu of live lectures in our gross anatomy and embryology course for the past eight years. We examined patterns of online lecture use by our students and related that use to academic entry measures, gender and examination performance. Detailed access records identified by student were available from server logs. Total views per page of lecture material increased over the first six years, then decreased markedly between years seven and eight, possibly due to the recent availability of alternate forms of lecture audio. Lecture use peaked in midafternoon and again in the evening, although some use was seen at all hours. Usage was highest at midweek and lowest on Fridays as might be expected. Individual student's use varied widely from rates equivalent to less than one viewing/page to more than three viewings per page. Overall use by male students was greater than that of females and gender‐specific differences in the daily pattern were seen. Lecture use was correlated to the Medical College Admission Test® (MCAT®) Verbal Reasoning and Physical Sciences scores but not to composite MCAT scores or undergraduate grade point average. Overall use appeared to be driven by scheduled team‐based learning (TBL) sessions and major examinations. Specific subsets of lecture material were most often viewed before related TBL sessions and again during review for examinations. A small but significant correlation between lecture use and examination and course performance was seen, specifically in the male student population. These findings, along with earlier observations, suggest that varied use of online lectures is attributable to multiple factors. Anat Sci Educ © 2012 American Association of Anatomists.
Structural and Evolutionary Inference from Molecular Variation in Neisseria Porins

ABSTRACT The porin proteins of the pathogenic Neisseria species,Neisseria gonorrhoeae and Neisseria meningitidis, are important as serotyping antigens, putative vaccine components, and for their proposed role in the intracellular colonization of humans. A three-dimensional structural homology model for Neisseria porins was generated from Escherichia coli porin structures and N. meningitidis PorA and PorB sequences. The Neisseria sequences were readily assembled into the 16-strand β-barrel fold characteristic of porins, despite relatively low sequence identity with theEscherichia proteins. The model provided information on the spatial relationships of variable regions of peptide sequences in the PorA and PorB trimers and insights relevant to the use of these proteins in vaccines. The nucleotide sequences of the porin genes from a number of other Neisseria species were obtained by PCR direct sequencing and from GenBank. Alignment and analysis of all available Neisseria porin sequences by use of the structurally conserved regions derived from the PorA and PorB structural models resulted in the recovery of an improved phylogenetic signal. Phylogenetic analyses were consistent with an important role for horizontal genetic exchange in the emergence of different porin classes and confirmed the close evolutionary relationships of the porins from N. meningitidis, N. gonorrhoeae,Neisseria lactamica, and Neisseria polysaccharea. Only members of this group contained three conserved lysine residues which form a potential GTP binding site implicated in pathogenesis. The model placed these residues on the inside of the pore, in close proximity, consistent with their role in regulating pore function when inserted into host cells.
Structural parameters for globular clusters in NGC 5128 - III. ACS surface brightness profiles and model fits

We present internal surface brightness profiles, based on Hubble Space Telescope/ACS imag- ing in the F606W bandpass, for 131 globular cluster (GC) candidates with luminosities L � 10 4 -3 × 10 6 Lin the giant elliptical galaxy NGC 5128. Several structural models are fitted to the profile of each cluster and combined with mass-to-light ratios (M/L values) from population-synthesis models, to derive a catalogue of fundamental structural and dynam- ical parameters parallel in form to the catalogues recently produced by McLaughlin & van der Marel and by Barmby et al. for GCs and massive young star clusters in Local Group galaxies. As part of this, we provide corrected and extended parameter estimates for another 18 clusters in NGC 5128, which we observed previously. We show that, like GCs in the Milky Way and some of its satellites, the majority of globulars in NGC 5128 are well fitted by isotropic Wilson models, which have intrinsically more distended envelope structures than the standard King lowered isothermal spheres. We use our models to predict internal velocity dispersions for every cluster in our sample. These predictions agree well in general with the observed disper- sions in a small number of clusters for which spectroscopic data are available. In a subsequent paper, we use these results to investigate scaling relations for GCs in NGC 5128.
Review of Hydrogen Isotope Permeability Through Materials

This report is the first part of a comprehensive summary of the literature on hydrogen isotope permeability through materials that do not readily form hydrides. While we mainly focus on pure metals with low permeabilities because of their importance to tritium containment, we also give data on higher-permeability materials such as iron, nickel, steels, and glasses.