Miracle-dz/UniFAR-FTUs huggingface dataset:
Microvascular Decompression for Hemifacial Spasm: Evaluating Outcome Prognosticators Including the Value of Intraoperative Lateral Spread Response Monitoring and Clinical Characteristics in 293 Patients

Hemifacial spasm is a socially disabling condition that manifests as intermittent involuntary twitching of the eyelid and progresses to muscle contractions of the entire hemiface. Patients receiving microvascular decompression of the facial nerve demonstrate an abnormal lateral spread response (LSR) in peripheral branches during facial electromyography. The authors retrospectively evaluate the prognostic value of preoperative clinical characteristics and the efficacy of intraoperative monitoring in predicting short- and long-term relief after microvascular decompression for hemifacial spasm. Microvascular decompression was performed in 293 patients with hemifacial spasm, and LSR was recorded during intraoperative facial electromyography monitoring. In 259 (87.7%) of the 293 patients, the LSR was attainable. Patient outcome was evaluated on the basis of whether the LSR disappeared or persisted after decompression. The mean follow-up period was 54.5 months (range, 9–102 months). A total of 88.0% of patients experienced immediate postoperative relief of spasm; 90.8% had relief at discharge, and 92.3% had relief at follow-up. Preoperative facial weakness and platysmal spasm correlated with persistent postoperative spasm, with similar trends at follow-up. In 207 patients, the LSR disappeared intraoperatively after decompression (group I), and in the remaining 52 patients, the LSR persisted intraoperatively despite decompression (group II). There was a significant difference in spasm relief between both groups within 24 hours of surgery (94.7% vs. 67.3%) (P < 0.0001) and at discharge (94.2% vs. 76.9%) (P = 0.001), but not at follow-up (93.3% vs. 94.4%) (P = 1.000). Multivariate logistic regression analysis demonstrated independent predictability of residual LSR for present spasm within 24 hours of surgery and at discharge but not at follow-up. Facial electromyography monitoring of the LSR during microvascular decompression is an effective tool in ensuring a complete decompression with long-lasting effects. Although LSR results predict short-term outcomes, long-term outcomes are not as reliant on LSR activity.
Parameter recovery, bias and standard errors in the linear ballistic accumulator model

The linear ballistic accumulator (LBA) model (Brown & Heathcote, , Cogn. Psychol., 57, 153) is increasingly popular in modelling response times from experimental data. An R package, glba, has been developed to fit the LBA model using maximum likelihood estimation which is validated by means of a parameter recovery study. At sufficient sample sizes parameter recovery is good, whereas at smaller sample sizes there can be large bias in parameters. In a second simulation study, two methods for computing parameter standard errors are compared. The Hessian-based method is found to be adequate and is (much) faster than the alternative bootstrap method. The use of parameter standard errors in model selection and inference is illustrated in an example using data from an implicit learning experiment (Visser et al., , Mem. Cogn., 35, 1502). It is shown that typical implicit learning effects are captured by different parameters of the LBA model.
A Characterization Study of Repeated Bug Fixes

Programmers always fix bugs when maintaining software. Previous studies showed that developers apply repeated bug fixes—similar or identical code changes—to multiple locations. Based on the observation, researchers built tools to identify code locations in need of similar changes, or to suggest similar bug fixes to multiple code fragments. However, some fundamental research questions, such as what are the characteristics of repeated bug fixes, are still unexplored. In this paper, we present a comprehensive empirical study with 341,856 bug fixes from 3 open source projects to investigate repeated fixes in terms of their frequency, edit locations, and semantic meanings. Specifically, we sampled bug reports and retrieved the corresponding fixing patches in version history. Then we chopped patches into smaller fixes (edit fragments). Among all the fixes related to a bug, we identified repeated fixes using clone detection, and put a fix and its repeated ones into one repeated-fix group. With these groups, we characterized the edit locations, and investigated the common bug patterns as well as common fixes.Our study on Eclipse JDT, Mozilla Firefox, and LibreOffice shows that (1) 15-20% of bugs involved repeated fixes; (2) 73-92% of repeated-fix groups were applied purely to code clones; and (3) 39% of manually examined groups focused on bugs relevant to additions or deletions of whole if-structures. These results deepened our understanding of repeated fixes. They enabled us to assess the effectiveness of existing tools, and will further provide insights for future research directions in automatic software maintenance and program repair.
Determination of Cd, Hg, As, Cr and Pb levels in meat from the Kumasi Central Abattoir

The purpose of this study was to determine the concentrations of toxic metals (Cd, Hg, Cr, Pb, As) in meat at the Kumasi Central Abattoir, Ghana by using a Varian 220 Atom Absorption Spectrophotometer. The levels of toxic metals in meat (cow, pig, sheep, goat, grass cutter, deer) varied in concentration. The concentration of lead was above the tolerance level in all the meat samples with the highest concentration recorded in beef at 1.154 mg/kg and the lowest at 0.037 mg/kg in pork. The amount of mercury, Hg observed in the various meat samples fell within the range of 0.059 mg/kg to 0.012 mg/kg, a little over the tolerable level of 0.05 mg/kg. The highest mercury, Hg concentration was observed in grasscutter meat (0.071 mg/kg) and the lowest concentration in pork, which was observed at 0.012 mg/kg, with the former above the permissible limit and the latter below the permissible limit. The concentrations of As, Cd and Cr were all within the tolerance limit. The meat analyzed may have a potential health risk to consumers.
Mutational Hotspot of TET2, IDH1, IDH2, SRSF2, SF3B1, KRAS, and NRAS from Human Systemic Mastocytosis Are Not Conserved in Canine Mast Cell Tumors

Introduction Both canine cutaneous mast cell tumor (MCT) and human systemic mastocytosis (SM) are characterized by abnormal proliferation and accumulation of mast cells in tissues and, frequently, by the presence of activating mutations in the receptor tyrosine kinase V-Kit Hardy-Zuckerman 4 Feline Sarcoma Viral Oncogene Homolog (c-KIT), albeit at different incidence (>80% in SM and 10–30% in MCT). In the last few years, it has been discovered that additional mutations in other genes belonging to the methylation system, the splicing machinery and cell signaling, contribute, with c-KIT, to SM pathogenesis and/or phenotype. In the present study, the mutational profile of the Tet methylcytosine dioxygenase 2 (TET2), the isocitrate dehydrogenases 1 and 2 (IDH1 and IDH2), the serine/arginine-rich splicing factor 2 (SRSF2), the splicing factor 3b subunit 1 (SF3B1), the Kirsten rat sarcoma viral oncogene homolog (KRAS) and the neuroblastoma RAS viral oncogene homolog (NRAS), commonly mutated in human myeloid malignancies and mastocytosis, was investigated in canine MCTs. Methods Using the Sanger sequencing method, a cohort of 75 DNA samples extracted from MCT biopsies already investigated for c-KIT mutations were screened for the “human-like” hot spot mutations of listed genes. Results No mutations were ever identified except for TET2 even if with low frequency (2.7%). In contrast to what is observed in human TET2 no frame-shift mutations were found in MCT samples. Conclusion Results obtained in this preliminary study are suggestive of a substantial difference between human SM and canine MCT if we consider some target genes known to be involved in the pathogenesis of human SM.
L. A. S. JOHNSON REVIEW No. 2 Use of nuclear genes for phylogeny reconstruction in plants

Molecular data have had a profound impact on the field of plant systematics, and the application of DNA-sequence data to phylogenetic problems is now routine. The majority of data used in plant molecular phylogenetic studies derives from chloroplast DNA and nuclear rDNA, while the use of low-copy nuclear genes has not been widely adopted. This is due, at least in part, to the greater difficulty of isolating and characterising low-copy nuclear genes relative to chloroplast and rDNA sequences that are readily amplified with universal primers. The higher level of sequence variation characteristic of low-copy nuclear genes, however, often compensates for the experimental effort required to obtain them. In this review, we briefly discuss the strengths and limitations of chloroplast and rDNA sequences, and then focus our attention on the use of low-copy nuclear sequences. Advantages of low-copy nuclear sequences include a higher rate of evolution than for organellar sequences, the potential to accumulate datasets from multiple unlinked loci, and bi-parental inheritance. Challenges intrinsic to the use of low-copy nuclear sequences include distinguishing orthologous loci from divergent paralogous loci in the same gene family, being mindful of the complications arising from concerted evolution or recombination among paralogous sequences, and the presence of intraspecific, intrapopulational and intraindividual polymorphism. Finally, we provide a detailed protocol for the isolation, characterisation and use of low-copy nuclear sequences for phylogenetic studies.
Finite Element Analysis of Periodic Structures Without Constrained Meshes

A finite element analysis is detailed of periodic structures without constrained meshes. The infinite periodic analysis domain is reduced to the unit cell analysis by means of the Floquet-Bloch decomposition, where an admittance-type matrix approach is carried out. Special emphasis is placed on the admittance-type matrix generation in such a way that the constrained meshing problem is no longer required. As a result, periodic ports are permitted in the unit cell, and the Floquet-Bloch periodic conditions are easily applied in the admittance-type matrix by means of a connection-like handling. Several infinite periodic antennas are shown to be analyzed appropriately.
Budesonide nasal spray as prophylactic treatment after polypectomy

Summary This double-blind parallel-group study compared the effect of budesonide with placebo, in the prophylaxis of nasal polyp recurrence after evulsion. Seventy-three patients with first time or recurrent polypectomy were enrolled. At revisits 3 and 6 months after evulsion, the budesonide-treated patients had significantly lower polyp scores than the placebo-treated patients. Only patients with recurrent nasal polyposis benefited from the budesonide treatment, whereas no effect was evident in patients with first time evulsion
Induction of Cancer Cell Apoptosis by Flavonoids Is Associated with Their Ability to Inhibit Fatty Acid Synthase Activity*

The consumption of food products containing high amounts of flavonoids has been reported to lower the risk of various cancers. The mechanisms underlying the cancer-protective effects of these naturally occurring polyphenolic compounds, however, remain elusive. Based on our previous finding that the cytotoxic effect of the flavanol epigallocatechin-3-gallate on prostate cancer cells correlates with its ability to inhibit fatty acid synthase (FAS, a key lipogenic enzyme overexpressed in many human cancers), we examined the anti-lipogenic effects of a panel of 18 naturally occurring polyphenolic compounds. In addition to epigallocatechin-3-gallate, five other flavonoids, more particularly luteolin, quercetin, kaempferol, apigenin, and taxifolin, also markedly inhibited cancer cell lipogenesis. Interestingly, in both prostate and breast cancer cells, a remarkable dose-response parallelism was observed between flavonoid-induced inhibition of fatty acid synthesis, inhibition of cell growth, and induction of apoptosis. In support for a role of fatty acid synthesis in these effects, the addition of exogenous palmitate, the end product of FAS, markedly suppressed the cytotoxic effects of flavonoids. Taken together, these findings indicate that the potential of flavonoids to induce apoptosis in cancer cells is strongly associated with their FAS inhibitory properties, thereby providing a new mechanism by which polyphenolic compounds may exert their cancer-preventive and antineoplastic effects.
The Multicast Capacity of Large Multihop Wireless Networks

We consider wireless ad hoc networks with a large number of users. Subsets of users might be interested in identical information, and so we have a regime in which several multicast sessions may coexist. We first calculate an upper bound on the achievable transmission rate per multicast flow as a function of the number of multicast sources in such a network. We then propose a simple comb-based architecture for multicast routing, which achieves the upper bound in an order sense under certain constraints. Compared to the approach of constructing a Steiner tree to decide multicast paths, our construction achieves the same order-optimal results while requiring little location information and no computational overhead.
Persistent depletion of I kappa B alpha and interleukin-8 expression in human pulmonary epithelial cells exposed to quartz particles.

Chronic inflammation and fibrosis following quartz inhalation has been associated with persistent up-regulation of several "pro-inflammatory" genes, which are commonly regulated by nuclear factor kappa-B (NF-kappaB). Transcription of the NF-kappaB-inhibitor IkappaBalpha is also under NF-kappaB control, and its de novo synthesis is considered to comprise a negative feedback loop in transient inflammation. To investigate this mechanism in particle inflammation, we have studied IkappaBalpha degradation in A549 cells exposed to DQ12-quartz or TiO(2), in relation to the expression of IL-8. Although both quartz and TiO(2) were found to cause IkappaBalpha degradation, only quartz elicited a mild IkappaBalpha depletion, first appearing at 4 h. TiO(2) was found to cause a higher short-term increase in IkappaBalpha mRNA-expression compared to quartz, whereas the early enhancement of IL-8 expression and release was similar for both particles. Up-regulation of IL-8 expression was found to persist with quartz only. Cotreatment with PDTC and curcumin reduced particle-elicited IL-8 response, whereas cycloheximide caused enhancement of IL-8 mRNA expression in both the quartz- and TiO(2)-treated cells. Our results demonstrate that mineral dusts cause IkappaBalpha degradation, a transient increase in de novo synthesis of IkappaBalpha, and enhanced IL-8 expression in human pulmonary epithelial cells. While IkappaBalpha degradation and early IL-8 expression seem to be general particle phenomena, particle-specific characteristics impact on activation of IkappaBalpha gene transcription, apparently accounting for the different proinflammatory IL-8 responses seen with quartz and TiO(2) in the longer term. These observations may provide an explanation for the transient versus the persistent pulmonary inflammatory status and subsequent differences in pathogenic potency of TiO(2) and quartz.
A Maximal Tractable Class of Soft Constraints

Many researchers in artificial intelligence are beginning to explore the use of soft constraints to express a set of (possibly conflicting) problem requirements. A soft constraint is a function defined on a collection of variables which associates some measure of desirability with each possible combination of values for those variables. However, the crucial question of the computational complexity of finding the optimal solution to a collection of soft constraints has so far received very little attention. In this paper we identify a class of soft binary constraints for which the problem of finding the optimal solution is tractable. In other words, we show that for any given set of such constraints, there exists a polynomial time algorithm to determine the assignment having the best overall combined measure of desirability. This tractable class includes many commonly-occurring soft constraints, such as 'as near as possible' or 'as soon as possible after', as well as crisp constraints such as 'greater than'. Finally, we show that this tractable class is maximal, in the sense that adding any other form of soft binary constraint which is not in the class gives rise to a class of problems which is NP-hard.
The SEARCH for Diabetes in Youth Study: Rationale, Findings, and Future Directions

The SEARCH for Diabetes in Youth (SEARCH) study was initiated in 2000, with funding from the Centers for Disease Control and Prevention and support from the National Institute of Diabetes and Digestive and Kidney Diseases, to address major knowledge gaps in the understanding of childhood diabetes. SEARCH is being conducted at five sites across the U.S. and represents the largest, most diverse study of diabetes among U.S. youth. An active registry of youth diagnosed with diabetes at age <20 years allows the assessment of prevalence (in 2001 and 2009), annual incidence (since 2002), and trends by age, race/ethnicity, sex, and diabetes type. Prevalence increased significantly from 2001 to 2009 for both type 1 and type 2 diabetes in most age, sex, and race/ethnic groups. SEARCH has also established a longitudinal cohort to assess the natural history and risk factors for acute and chronic diabetes-related complications as well as the quality of care and quality of life of persons with diabetes from diagnosis into young adulthood. Many youth with diabetes, particularly those from low-resourced racial/ethnic minority populations, are not meeting recommended guidelines for diabetes care. Markers of micro- and macrovascular complications are evident in youth with either diabetes type, highlighting the seriousness of diabetes in this contemporary cohort. This review summarizes the study methods, describes key registry and cohort findings and their clinical and public health implications, and discusses future directions.
Distributed Vector Representations for Unsupervised Automatic Short Answer Grading

We address the problem of automatic short answer grading, evaluating a collection of approaches inspired by recent advances in distributional text representations. In addition, we propose an unsupervised approach for determining text similarity using one-to-many alignment of word vectors. We evaluate the proposed technique across two datasets from different domains, namely, computer science and English reading comprehension, that additionally vary between highschool level and undergraduate students. Experiments demonstrate that the proposed technique often outperforms other compositional distributional semantics approaches as well as vector space methods such as latent semantic analysis. When combined with a scoring scheme, the proposed technique provides a powerful tool for tackling the complex problem of short answer grading. We also discuss a number of other key points worthy of consideration in preparing viable, easy-to-deploy automatic short-answer grading systems for the real-world.
The potential contribution of the polymerase chain reaction to the diagnosis of tuberculous meningitis.

OBJECTIVE To examine diagnostic utility of polymerase chain reaction (PCR) on cerebrospinal fluid (CSF) in tuberculous meningitis (TBM). DESIGN Comparison study. SETTING Referral center for tuberculosis diagnosis and treatment in Ho Chi Minh City, Vietnam, and research laboratory in Amsterdam, the Netherlands. PATIENTS One hundred thirty-six consecutive patients, aged 4 months to 85 years, with features compatible with TBM seen during a 12-month period. MEASUREMENTS Clinical examination; cytology; Gram, india ink, and Ziehl-Neelsen staining; culture of CSF for bacteria, mycobacteria, fungi, and viruses; and CSF chloride, protein, and glucose. All these tests were performed in Vietnam. The PCR on CSF was performed in the Netherlands. RESULTS Patients were managed in Vietnam without knowledge of PCR results. Based on clinical grounds and the results of initial CSF microscopy, antituberculous treatment was given to 104 patients, 66 of whom had evidence of extraneural tuberculosis. Among the 39 patients with confirmed TBM (ie, positive Ziehl-Neelsen staining or culture or PCR results for Mycobacterium tuberculosis), PCR detected 32 patients (82%), 1 case was proven positive through microscopy and 17 (44%) had positive culture results. There were no false-positive PCR results. In 99 patients with a final diagnosis of confirmed or probable TBM (ie, clinical features of TBM and response to antituberculous treatment), PCR had a sensitivity of 32%; culture, 17% and microscopy, 1%. CONCLUSIONS Many patients who respond to treatment for TBM do not have M tuberculosis in the CSF identifiable by microscopy, PCR, or culture. Polymerase chain reaction on CSF is the best method for the laboratory diagnosis of TBM. Polymerase chain reaction is especially useful for the early diagnosis of TBM in those without active extraneural tuberculosis.
A learning problem that is independent of the set theory ZFC axioms

We consider the following statistical estimation problem: given a family F of real valued functions over some domain X and an i.i. d. sample drawn from an unknown distribution P over X, find h in F such that the expectation of h w.r. t. P is probably approximately equal to the supremum over expectations on members of F. This Expectation Maximization (EMX) problem captures many well studied learning problems; in fact, it is equivalent to Vapnik's general setting of learning. Surprisingly, we show that the EMX learnability, as well as the learning rates of some basic class F, depend on the cardinality of the continuum and is therefore independent of the set theory ZFC axioms (that are widely accepted as a formalization of the notion of a mathematical proof). We focus on the case where the functions in F are Boolean, which generalizes classification problems. We study the interaction between the statistical sample complexity of F and its combinatorial structure. We introduce a new version of sample compression schemes and show that it characterizes EMX learnability for a wide family of classes. However, we show that for the class of finite subsets of the real line, the existence of such compression schemes is independent of set theory. We conclude that the learnability of that class with respect to the family of probability distributions of countable support is independent of the set theory ZFC axioms. We also explore the existence of a "VC-dimension-like" parameter that captures learnability in this setting. Our results imply that that there exist no "finitary" combinatorial parameter that characterizes EMX learnability in a way similar to the VC-dimension based characterization of binary valued classification problems.