Miracle-dz/UniFAR-FTUs huggingface dataset:
Transcranial magnetic stimulation for the deficit syndrome of schizophrenia: A pilot investigation

Abstract In an open study, four subjects with a stable deficit syndrome of schizophrenia received high frequency repetitive transcranial magnetic stimulation (15 Hz at 90% of motor threshold, 1800 pulses each session, daily for 20 sessions over 4 weeks) over the left dorsolateral prefrontal cortex. Subjects showed a significant reduction in negative symptoms and improvement in function, with no change in positive symptoms. This improvement was maintained at the 1 month follow up. Repetitive transcranial magnetic stimulation as a treatment of the deficit syndrome of schizophrenia is feasible, safe and may be beneficial. A systematic study in randomized control trials would be appropriate.
Maintenance and analysis of visual programs - an industrial case

A domain-specific visual language, function block language (FBL), is used in Metso Automation for writing automation control programs. The same engineering environment is used for both forward and reverse engineering activities, providing convenient support for the maintenance and evolution of FBL programs. Various data and program analysis methods are applied to study the FBL programs stored in project library archives. Metadata stored about the program allows various kinds of queries and enables focusing the analysis to certain kinds of programs. The application of the provided analysis methods further aids the maintenance and reuse activities. Software and data reverse engineering techniques are traditionally used to support program and data comprehension, respectively. In this paper we show how corresponding techniques can be used to analyze visual programs. The visual language under study in this paper is FBL. FBL and the analysis techniques proposed have been used in real-world projects at Metso Automation.
Smoking and Colorectal Cancer in a Non-Western Population: a Prospective Cohort Study in Japan

BACKGROUND: The risk of colorectal cancer in relation to smoking habits has been examined mostly in Caucasians, and evidence for other ethnic groups is still scarce. METHODS: Our data came from the Japan Collaborative Cohort (JACC) Study. From 1988 through 1990, 25,260 men and 34,619 women aged 40-79 years completed a questionnaire on cigarette smoking and other lifestyle factors. Hazard ratios (HR) were estimated by fitting proportional hazards models. RESULTS: During the mean follow-up of 7.6 years through December 1997, we documented 408 incident colon cancers and 204 rectal cancers. We found a non-significant increase in colon cancer risk in male current smokers compared with never smokers. The multivariate-adjusted hazard ratios were 1.07 (95% confidence interval [CI]: 0.72-1.59) for ex-smokers and 1.23 (95% CI: 0.85-1.78) for current smokers. We however failed to observe a clear dose-response relationship between smoking intensity or duration and colon cancer risk. The adjusted hazard ratio was 1.07 (95% CI: 0.71-1.61) even for 40+ years of smoking. Almost no increase in colon cancer risk was detected for female smokers, and male smokers were not at an enhanced risk of rectal cancer. CONCLUSIONS: Cigarette smoking was not a strong risk factor for colorectal cancer even after a long-term exposure, although a weak association remains open to discussion.
Sensitization of tumour cells to lysis by virus-specific CTL using antibody-targeted MHC class I/peptide complexes

A number of cell surface molecules with specificity to tumour cells have been identified and monoclonal antibodies (mAb) to some of these antigens have been used for targeting tumour cells in vivo. We have sought to link the powerful effector mechanisms of cytotoxic T-cells with the specificity of mAb, by targeting recombinant HLA class I molecules to tumour cells using an antibody delivery system. Soluble recombinant MHC class I/peptide complexes including HLA-A2.1 refolded around an immunodominant peptide from the HIV gag protein (HLA-A2/gag) were synthesized, and the stability of these complexes at 37°C was confirmed by enzyme-linked immunosorbent assay using a conformation-specific antibody. MHC class I-negative lymphoma cells (Daudi) were labelled with a biotinylated mAb specific for a cell surface protein (anti-CD20) then linked to soluble biotinylated HLA-A2/gag complexes using an avidin bridge. Flow cytometry revealed strong labelling of lymphoma cells with HLA-A2/gag complexes (80-fold increase in mean channel fluorescence). CTL specific for HLA-A2/gag efficiently lysed complex-targeted cells, while control CTL (specific for an HLA-A2.1-restricted epitope of melan-A) did not. Similarly, SK-mel-29 melanoma cells were also efficiently lysed by HLA-A2/gag-specific CTL when HLA-A2/gag complexes were linked to their surface via the HMW-MAA specific anti-melanoma antibody 225.28s. With further consideration to the in vivo stability of the MHC class I/peptide complexes, this system could prove a new strategy for the immunological therapy of cancer. © 2000 Cancer Research Campaign
A High-Accuracy 2D Visual Marker for Dexterous Manipulation Robot in Space

This paper describes developmental results of a new high-accuracy 2D visual marker for space application. It shows the results of experiments to evaluate the space environmental tolerance of the previous visual marker. It also shows the new redesigned marker based on the experimental results in conjunction with evaluation results of pose and position estimation by image processing. This new marker has the equivalent performance of pose and position estimation to the previous visual marker. This accurate, planar and space environmental tolerant visual marker will contribute to various space missions which require highly accurate position and pose estimation such as dexterous manipulation in space.
Quantifying and mitigating IGMP filtering in topology discovery

Recent developments in router level topology discovery have suggested the introduction of IGMP probing in addition to standard techniques such as traceroute and alias resolution. With a single IGMP probe, one can obtain all multicast interfaces and links of a multicast router. If such a probing is a promising approach, we noticed that IGMP probes are subject to filtering, leading so to the fragmentation of the collected multicast graph into several disjoint connected components. In this paper, we cope with the fragmentation issue. Our contributions are threefold: (i) we experimentally quantify the damages caused by IGMP filtering on collected topologies of large tier-1 ISPs; (ii) using traceroute data, we construct a hybrid graph and estimate how far each IGMP fragment is from each other; (iii) we provide and experimentally evaluate a recursive approach for reconnecting disjoint multicast components. The key idea of the third contribution is to recursively apply alias resolution to reassemble disjoint fragments and, thus, progressively extend the mapping of the targeted ISP. Data presented in the paper, as well as reconstructed topologies, are freely available at http://svnet.u-strasbg.fr/merlin.
Impaired glucose tolerance in patients with amyotrophic lateral sclerosis

Our objectives were to analyse carbohydrate metabolism in a series of ALS patients and to examine potential association with parameters of lipid metabolism and clinical features. Glucose tolerance was assessed by the oral glucose tolerance test in 21 non-diabetic ALS patients and compared with 21 age- and sex-matched normal subjects. Lipids and lactate/pyruvate ratio, levels of pro-inflammatory cytokines (tumour necrosis factor-alpha and interleukin-6) and adipocytokines (leptin and adiponectin) were also measured in ALS patients. Mann-Whitney U-tests analysed continuous data and Fisher's exact tests assessed categorical data. Blood glucose determined 120 min after the glucose bolus was significantly higher in patients with ALS (7.41 mmol/l±1.68) compared to controls (6.05±1.44, p=0.006). ALS patients with impaired glucose tolerance (IGT) according to WHO criteria (n=7, 33%) were more likely to have elevated free fatty acids (FFA) levels compared to patients with normal glucose tolerance (0.77 nmol/l±0.30 vs. 0.57±0.19, p=0.04). IGT was not associated with disease duration or severity. In conclusion, patients with ALS show abnormal glucose tolerance that could be associated with increased FFA levels, a key determinant of insulin resistance. The origin of glucose homeostasis abnormalities in ALS may be multifactorial and deserves further investigation.
Autoimmune Hepatitis: An Update on Current Animal Models

Autoimmune hepatitis (AIH) is a chronic liver disease of unknown origin characterized serologically by the presence of hyperglobulinemia and high-titre autoantibodies and histologically by interface hepatitis leading to cirrhosis. The immunopathogenesis of AIH is not well understood. Hepatocyte destruction in AIH is likely to originate from an autoimmune attack but what it is responsible for the loss of immunological tolerance to disease-related autoantigens is un- known. In this review, we critically evaluate the current experimental AIH models and discuss their advantages and dis- advantages in relation to the human disease.
Surrogate Data Methods Based on a Shuffling of the Trials for Synchrony Detection: The Centering Issue

Abstract We investigate several distribution-free dependence detection procedures, all based on a shuffling of the trials, from a statistical point of view. The mathematical justification of such procedures lies in the bootstrap principle and its approximation properties. In particular, we show that such a shuffling has mainly to be done on centered quantities—that is, quantities with zero mean under independence—to construct correct p-values, meaning that the corresponding tests control their false positive (FP) rate. Thanks to this study, we introduce a method, named permutation UE, which consists of a multiple testing procedure based on permutation of experimental trials and delayed coincidence count. Each involved single test of this procedure achieves the prescribed level, so that the corresponding multiple testing procedure controls the false discovery rate (FDR), and this with as few assumptions as possible on the underneath distribution, except independence and identical distribution across trials. The mathematical meaning of this assumption is discussed, and it is in particular argued that it does not mean what is commonly referred in neuroscience to as cross-trials stationarity. Some simulations show, moreover, that permutation UE outperforms the trial-shuffling of Pipa and Grün (2003) and the MTGAUE method of Tuleau-Malot et al. (2014) in terms of single levels and FDR, for a comparable amount of false negatives. Application to real data is also provided.
DeepSpark: Spark-Based Deep Learning Supporting Asynchronous Updates and Caffe Compatibility

The increasing complexity of deep neural networks (DNNs) has made it challenging to exploit existing large-scale data process pipelines for handling massive data and parameters involved in DNN training. Distributed computing platforms and GPGPU-based acceleration provide a mainstream solution to this computational challenge. In this paper, we propose DeepSpark, a distributed and parallel deep learning framework that simultaneously exploits Apache Spark for large-scale distributed data management and Caffe for GPU-based acceleration. DeepSpark directly accepts Caffe input specifications, providing seamless compatibility with existing designs and network structures. To support parallel operations, DeepSpark automatically distributes workloads and parameters to Caffe-running nodes using Spark and iteratively aggregates training results by a novel lock-free asynchronous variant of the popular elastic averaging stochastic gradient descent (SGD) update scheme, effectively complementing the synchronized processing capabilities of Spark. DeepSpark is an on-going project, and the current release is available at this http URL
On the Azimuthally Anisotropy Effects of Polarization for Altimetric Measurements

We have investigated the effect of the radar-altimeter antenna polarization on European Remote-sensing Satellite and Envisat observations of the media penetrable by a radar microwave such as ice sheets. This effect is due to the complex interaction between the radar wave, the subsurface backscatter, and the antenna polarization direction. It is modulated by the angle between the antenna polarization and the direction of the anisotropy of the target. Thus, it depends on both the anisotropy direction and the interaction between the radar wave and the reflecting surface. This effect leads to one of the most complex and least understood errors of radar altimetry over ice sheets and can be clearly identified when looking at the crossover differences between ascending and descending satellite tracks. The crossover differences are as large as a few decibels for a backscattering coefficient and a few meters for height, and affect more strongly the Ku-band than the S-band. This causes limitations and difficulties for the processing of altimetric observations, for instance when comparing time series from different satellites whose polarization geometry differs. This will be the case when a new altimeter will fly on a different orbit, as planned for CryoSat. Nevertheless, the ability of both the roughness anisotropy direction and the subsurface modulation to be inverted with satisfactory precision by using simultaneous observations at crossover points between two different satellites is demonstrated here. Thus, it offers a unique way of describing this error accurately to correct for it
Disturbance, colonization and development of Antarctic benthic communities

A decade has yielded much progress in understanding polar disturbance and community recovery—mainly through quantifying ice scour rates, other disturbance levels, larval abundance and diversity, colonization rates and response of benthos to predicted climate change. The continental shelf around Antarctica is clearly subject to massive disturbance, but remarkably across so many scales. In summer, millions of icebergs from sizes smaller than cars to larger than countries ground out and gouge the sea floor and crush the benthic communities there, while the highest wind speeds create the highest waves to pound the coast. In winter, the calm associated with the sea surface freezing creates the clearest marine water in the world. But in winter, an ice foot encases coastal life and anchor ice rips benthos from the sea floor. Over tens and hundreds of thousands of years, glaciations have done the same on continental scales—ice sheets have bulldozed the seabed and the zoobenthos to edge of shelves. We detail and rank modern disturbance levels (from most to least): ice; asteroid impacts; sediment instability; wind/wave action; pollution; UV irradiation; volcanism; trawling; non-indigenous species; freshwater inundation; and temperature stress. Benthic organisms have had to recolonize local scourings and continental shelves repeatedly, yet a decade of studies have demonstrated that they have (compared with lower latitudes) slow tempos of reproduction, colonization and growth. Despite massive disturbance levels and slow recolonization potential, the Antarctic shelf has a much richer fauna than would be expected for its area. Now, West Antarctica is among the fastest warming regions and its organisms face new rapid changes. In the next century, temperature stress and non-indigenous species will drastically rise to become dominant disturbances to the Antarctic life. Here, we describe the potential for benthic organisms to respond to disturbance, focusing particularly on what we know now that we did not a decade ago.
GoArrays: highly dynamic and efficient microarray probe design

MOTIVATION The use of oligonucleotide microarray technology requires a very detailed attention to the design of specific probes spotted on the solid phase. These problems are far from being commonplace since they refer to complex physicochemical constraints. Whereas there are more and more publicly available programs for microarray oligonucleotide design, most of them use the same algorithm or criteria to design oligos, with only little variation. RESULTS We show that classical approaches used in oligo design software may be inefficient under certain experimental conditions, especially when dealing with complex target mixtures. Indeed, our biological model is a human obligate parasite, the microsporidia Encephalitozoon cuniculi. Targets that are extracted from biological samples are composed of a mixture of pathogen transcripts and host cell transcripts. We propose a new approach to design oligonucleotides which combines good specificity with a potentially high sensitivity. This approach is original in the biological point of view as well as in the algorithmic point of view. We also present an experimental validation of this new strategy by comparing results obtained with standard oligos and with our composite oligos. A specific E.cuniculi microarray will overcome the difficulty to discriminate the parasite mRNAs from the host cell mRNAs demonstrating the power of the microarray approach to elucidate the lifestyle of an intracellular pathogen using mix mRNAs.
MATERNAL DEPRESSION AND CHILD OXYTOCIN RESPONSE; MODERATION BY MATERNAL OXYTOCIN AND RELATIONAL BEHAVIOR

Maternal postpartum depression (PPD) carries long‐term detrimental effects on children's well‐being, yet the mechanisms of transmission remain unclear. One possible pathway of vulnerability involves the oxytocinergic (OT) system, which is transferred from mother to child via sensitive caregiving and is disrupted in PPD.
Antigenic Maps of Influenza A(H3N2) Produced With Human Antisera Obtained After Primary Infection

Background Antigenic characterization of influenza viruses is typically based on hemagglutination inhibition (HI) assay data for viral isolates tested against strain-specific postinfection ferret antisera. Here, similar virus characterizations were performed using serological data from humans with primary influenza A(H3N2) infection. Methods We screened sera collected between 1995 and 2011 from children between 9 and 24 months of age for influenza virus antibodies, performed HI tests for the positive sera against 23 influenza viruses isolated between 1989 and 2011, and measured HI titers of antisera against influenza A(H3N2) from 24 ferrets against the same panel of viruses. Results Of the 17 positive human sera, 6 had a high response, showing HI patterns that would be expected from primary infection antisera, while 11 sera had lower, more dispersed patterns of reactivity that are not easily explained. The antigenic map based on the high-response human HI data was similar to the map created using ferret data. Conclusions Although the overall structure of the ferret and human antigenic maps is similar, local differences in virus positions indicate that the human and ferret immune system might see antigenic properties of viruses differently. Further studies are needed to establish the degree of similarity between serological patterns in ferret and human data.
Inpatient preanalytic process improvements.

CONTEXT Phlebotomy services are a common target for preanalytic improvements. Many new, quality engineering tools have recently been applied in clinical laboratories. However, data on relatively few projects have been published. This example describes a complete application of current, quality engineering tools to improve preanalytic phlebotomy services. OBJECTIVES To decrease the response time in the preanalytic inpatient laboratory by 25%, to reduce the number of incident reports related to preanalytic phlebotomy, and to make systematic process changes that satisfied the stakeholders. DESIGN The Department of Laboratory Medicine, General Services Section, at the University of Texas MD Anderson Cancer Center (Houston) is responsible for inpatient phlebotomy in a 24-hour operation, which serves 689 inpatient beds. The study director was project director of the Division of Pathology and Laboratory Medicine's Quality Improvement Section and was assisted by 2 quality technologists and an industrial engineer from MD Anderson Office of Performance Improvement. RESULTS After implementing each solution, using well-recognized, quality tools and metrics, the response time for blood collection decreased by 23%, which was close to meeting the original responsiveness goal of 25%. The response time between collection and arrival in the laboratory decreased by 8%. Applicable laboratory-related incident reports were reduced by 43%. CONCLUSIONS Comprehensive application of quality tools, such as statistical control charts, Pareto diagrams, value-stream maps, process failure modes and effects analyses, fishbone diagrams, solution prioritization matrices, and customer satisfaction surveys can significantly improve preset goals for inpatient phlebotomy.
Elevated fasting insulin level significantly increases the risk of microalbuminuria.

BACKGROUND Microalbuminuria is significantly associated with long-term prognosis in the general population as well as in diabetic patients. It is well known that insulin resistance (IR) can induce microalbuminuria, but an elevated fasting insulin level, which is an early clinical manifestation of IR, as a risk factor for microalbuminuria has not been clarified, so we investigated the association between fasting insulin level and the development of microalbuminuria in a general population. METHODS AND RESULTS A total of 1,192 non-diabetic Korean men without microalbuminuria in 2005 were followed until 2010. They were categorized into 3 groups according to their fasting insulin levels and monitored for the development of microalbuminuria. The incidence of microalbuminuria was compared among groups, and Cox proportional hazards models were used to calculate the hazard ratios for microalbuminuria according to the fasting insulin levels. During 4,013.0 person-years of follow-up, 51 incident cases of microalbuminuria developed between 2006 and 2010. The incidence of microalbuminuria increased in proportion to the fasting insulin levels (tertile 1: 1.8%, tertile 2: 4.5%, tertile 3: 6.5%, P<0.001). Hazard ratios for microalbuminuria also increased in proportion to the fasting insulin levels [tertile 1: reference, tertile 2: 2.44 (1.01-5.89), tertile 3: 3.30 (1.40-7.78), respectively, P for trend 0.013]. CONCLUSIONS Elevated fasting insulin level was associated with the future development of microalbuminuria.