LLukas22/scidocs huggingface dataset:
Gabor feature based nonlocal means filter for textured image denoising

The nonlocal means (NLM) filter has distinct advantages over traditional image denoising techniques. However, in spite of its simplicity, the pixel value-based self-similarity measure used by the NLM filter is intrinsically less robust when applied to images with non-stationary contents. In this paper, we use Gabor-based texture features to measure the self-similarity, and thus propose the Gabor feature based NLM (GFNLM) filter for textured image denoising. This filter recovers noise-corrupted images by replacing each pixel value with the weighted sum of pixel values in its search window, where each weight is defined based on the Gabor-based texture similarity measure. The GFNLM filter has been compared to the classical NLM filter and four other state-of-the-art image denoising algorithms in textured images degraded by additive Gaussian noise. Our results show that the proposed GFNLM filter can denoise textured images more effectively and robustly while preserving the texture information. 2012 Elsevier Inc. All rights reserved.
Comparative Evaluation of Anomaly Detection Techniques for Sequence Data

We present a comparative evaluation of a large number of anomaly detection techniques on a variety of publicly available as well as artificially generated data sets. Many of these are existing techniques while some are slight variants and/or adaptations of traditional anomaly detection techniques to sequence data.
The challenge of abstract concepts.

concepts ("freedom") differ from concrete ones ("cat"), as they do not have a bounded, identifiable, and clearly perceivable referent. The way in which abstract concepts are represented has recently become a topic of intense debate, especially because of the spread of the embodied approach to cognition. Within this framework concepts derive their meaning from the same perception, motor, and emotional systems that are involved in online interaction with the world. Most of the evidence in favor of this view, however, has been gathered with regard to concrete concepts. Given the relevance of abstract concepts for higher-order cognition, we argue that being able to explain how they are represented is a crucial challenge that any theory of cognition needs to address. The aim of this article is to offer a critical review of the latest theories on abstract concepts, focusing on embodied ones. Starting with theories that question the distinction between abstract and concrete concepts, we review theories claiming that abstract concepts are grounded in metaphors, in situations and introspection, and in emotion. We then introduce multiple representation theories, according to which abstract concepts evoke both sensorimotor and linguistic information. We argue that the most promising approach is given by multiple representation views that combine an embodied perspective with the recognition of the importance of linguistic and social experience. We conclude by discussing whether or not a single theoretical framework might be able to explain all different varieties of abstract concepts. (PsycINFO Database Record
Steganalysis of least significant bit matching using multi-order differences

This paper presents a learning-based steganalysis/detection method to attack spatial domain least significant bit (LSB) matching steganography in grayscale images, which is the antetype of many sophisticated steganographic methods. We model the message embedded by LSB matching as the independent noise to the image, and theoretically prove that LSB matching smoothes the histogram of multi-order differences. Because of the dependency among neighboring pixels, histogram of low order differences can be approximated by Laplace distribution. The smoothness caused by LSB matching is especially apparent at the peak of the histogram. Consequently, the low order differences of image pixels are calculated. The co-occurrence matrix is utilized to model the differences with the small absolute value in order to extract features. Finally, support vector machine classifiers are trained with the features so as to identify a test image either an original or a stego image. The proposed method is evaluated by LSB matching and its improved version “Hugo”. In addition, the proposed method is compared with state-of-the-art steganalytic methods. The experimental results demonstrate the reliability of the new detector. Copyright © 2013 John Wiley & Sons, Ltd.
Safety and efficacy of intravenous tissue plasminogen activator stroke treatment in the 3- to 6-hour window using multimodal transcranial Doppler/MRI selection protocol.

BACKGROUND
Growing data point toward intravenous tissue plasminogen activator (tPA) benefit after 3 hours in selected stroke patients. We aim to study safety and efficacy of tPA treatment in the 3- to 6-hour window using multimodal transcranial Doppler (TCD)/MRI selection criteria.


METHODS
We studied patients with acute middle cerebral artery (MCA) occlusion. Patients within 0 to 3 hours from symptom onset (A) were treated according to standard computed tomography criteria. Treatment within 3 to 6 hours (B) was decided according to TCD/MRI protocol. Continuous TCD assessed clot location and recanalization. National Institutes of Health Stroke Scale (NIHSS) at 24 hours assessed neurological improvement/worsening and modified Rankin score <3 functional independence at third month.


RESULTS
Of 135 patients, 56 were in the 3- to 6-hour window. Only 13 (23%) patients within 3 to 6 hours did not meet MRI inclusion criteria. Finally, 122 patients were treated with tPA: A, 79 (65%); B, 43 (35%). Median time to treatment was: A, 136 minutes (range 60 to 180); B, 223 (185 to 360). There were no differences in demographic parameters, baseline NIHSS (A, 17; B, 17; P=0.89), and occlusion location (proximal MCA A, 65.8%; B, 74.4%; P=0.28). Recanalization rates at 2 hours were similar (A, 49.3%; B, 55.2%; P=0.33), as were hemorrhagic transformation rates (asymptomatic: A, 18.7%, B, 26.6%, P=0.43; symptomatic: A, 3.75%, B, 2.38%, P=0.66). Improvement at discharge was similar in both groups (NIHSS dropped 6.3 points [A] versus 6.1 [B]; P=0.86). However, the number of patients who benefited from treatment was slightly higher in the 3- to 6-hour group (A, 58.2%; B, 76.2%; P=0.05), whereas the same rate of patients worsened (A, 11.4%; B, 7.1%; P=0.46). At 3 months, the rate of independent patients was: A, 42% versus B, 38% (P=0.74).


CONCLUSIONS
tPA treatment can be safely and effectively extended to the 3- to 6-hour window using TCD/MRI selection criteria. Not using these criteria in the 3- to 6-hour window avoids potentially effective treatment in a high rate of patients.
Rates and Correlates of DSM-IV Diagnoses in Women Newly Diagnosed with Breast Cancer

Although the presence of psychological distress has been documented in women with breast cancer, previous studies have not established rates of DSM-IV diagnoses in this population, nor have prior investigations compared the utility of diagnostic interviewing vs. symptom checklists to assess distress. DSM-IV diagnoses of anxiety disorders and major depression, symptoms of anxiety and depression, and quality of life were examined in 207 women with newly diagnosed breast cancer. Eighteen percent of breast cancer patients met criteria for a current DSM-IV anxiety or depressive disorder and 54% met criteria for a disorder at some point in their lifetime. These rates are comparable to those found in recent community epidemiological studies (e.g., R. C. Kessler, K. A. McGonagle, S. Zhao, C. B. Nelson, M. Hughes, S. Esheman, et al., 1994). Sensitivity, specificity, and positive predictive value for anxiety and depression symptoms as predictors of DSM disorders were relatively poor. However, after accounting for demographic, treatment, and cancer variables, self-reported anxiety symptoms were significantly related to the presence of an anxiety disorder and self-reported depressive symptoms were significantly related to a diagnosis of a depressive disorder. Symptoms of anxiety and depression contributed significantly and uniquely to physical, medical, and sexual quality of life; DSM-IV diagnoses were not significantly related to quality of life after controlling for symptoms of depression and anxiety. The importance of measuring both symptoms of distress and psychiatric diagnoses in cancer patients and the clinical practice implications of the results are discussed.
Language modeling for bag-of-visual words image categorization

In this paper, we propose two ways of improving image classification based on bag-of-words representation [25]. Two shortcomings of this representation are the loss of the spatial information of visual words and the presence of noisy visual words due to the coarseness of the vocabulary building process. On the one hand, we propose a new representation of images that goes further in the analogy with textual data: visual sentences, that allows us to "read" visual words in a certain order, as in the case of text. We can therefore consider simple spatial relations between words. We also present a new image classification scheme that exploits these relations. It is based on the use of language models, a very popular tool from speech and text analysis communities. On the other hand, we propose new techniques to eliminate useless words, one based on geometric properties of the keypoints, the other on the use of probabilistic Latent Semantic Analysis (pLSA). Experiments show that our techniques can significantly improve image classification, compared to a classical Support Vector Machine-based classification.
Reduced thrombin formation and altered fibrin clot properties induced by polyunsaturated omega-3 fatty acids on top of dual antiplatelet therapy in patients undergoing percutaneous coronary intervention (OMEGA-PCI clot).

OBJECTIVE
The goal of this study was to investigate whether omega-3 polyunsaturated fatty acids (n-3 PUFA) are able to alter plasma fibrin clot properties and reduce thrombin formation in stable coronary artery disease patients undergoing percutaneous coronary intervention (PCI).


METHODS AND RESULTS
In an investigator-initiated, prospective, double-blind, placebo-controlled, randomized study, patients undergoing PCI who received standard pharmacotherapy were assigned to the treatment with 1 g/day n-3 PUFA (n = 30) or placebo (n = 24) for 1 month. Plasma fibrin clot permeability (K(s)); lysis time (t(50%)); prothrombin fragment 1.2; and peak thrombin generation from automated thrombogram, 8-isoprostaglandin F(2α) (8-iso-PGF(2α), an oxidative stress marker), and C-reactive protein were determined at baseline, 3 to 5 days after randomization, and 30 days after randomization. At baseline, both treatment groups did not differ significantly. A 1-month treatment with n-3 PUFA compared with placebo was associated with 15.3% higher K(s), indicating larger pores in the fibrin network (P = 0.0005); 14.3% shorter t(50%), indicating increased susceptibility to fibrinolysis (P<0.0001); 33.8% lower prothrombin fragment 1.2 (P = 0.0013); 13.4% lower peak thrombin generation (P = 0.04); and 13.1% lower 8-iso-PGF(2α) (P = 0.009). Treatment with n-3 PUFA had no effect on fibrinogen and C-reactive protein. After 1 month of treatment, fibrinogen (r = -0.53, P<0.0001), treatment assignment (r = 0.29, P = 0.006) and 8-iso-PGF(2α) (r = -0.27, P = 0.015) were independently associated with clot permeability (P<0.0001, R(2) = 0.66).


CONCLUSIONS
Adding n-3 PUFA to standard therapy in stable patients undergoing PCI significantly decreases thrombin formation and oxidative stress and favorably alters fibrin clot properties. These findings indicate novel antithrombotic effects induced by n-3 PUFA in humans.
Acoustic radiation force impulse (ARFI) in the evaluation of the renal parenchymal stiffness in paediatric patients with vesicoureteral reflux: preliminary results

To prospectively evaluate acoustic radiation force impulse (ARFI) imaging of the kidneys in children with and without chronic renal disease. Twenty-eight children (age range 9–16 years) with primary or secondary vesicoureteral reflux (≥ grade III) underwent scintigraphy and ultrasound with ARFI. Kidneys were divided—according to scintigraphy—into “affected” and “contralateral”; the results were compared with 16 age-matched healthy subjects. An ARFI value, expressed as speed (m/s) of wave propagation through the tissue, was calculated for each kidney through the mean of the values obtained at the upper, middle and lower third. The Wilcoxon test was used; P values <0.05 were considered statistically significant. The mean ARFI values obtained in the “affected” kidneys (5.70 ± 1.71 m/s) were significantly higher than those measured in both “contralateral” (4.09 ± 0.97, P < 0.0001) and “healthy” kidneys (3.13 ± 0.09, P < 0.0001). The difference between values in the “contralateral” kidneys and “healthy” ones was significant (P < 0.0001). The “affected” kidneys with secondary reflux had mean ARFI values (6.59 ± 1.45) significantly higher than those with primary reflux (5.35 ± 1.72). ARFI values decrease from kidneys with secondary vesicoureteral reflux to kidneys with primary reflux to unaffected kidneys contralateral to reflux to normal kidneys. • Acoustic radiation force impulse (ARFI) can quantify tissue elasticity during ultrasound examinations. • Kidneys are highly heterogeneous and difficult to evaluate with ARFI. • Kidneys damaged by vesicoureteral reflux are stiffer than normal. • ARFI can identify initial damage in macroscopically normal kidneys.
New Digit Results and Several Problems

We give some new relations for Newman digit sums respectively different modulos and put some problems. In particular, for the odd prime modulos we put an important conjecture.
High-resolution profiling of histone h3 lysine 36 trimethylation in metastatic renal cell carcinoma

Mutations in SETD2, a histone H3 lysine trimethyltransferase, have been identified in clear cell renal cell carcinoma (ccRCC); however it is unclear if loss of SETD2 function alters the genomic distribution of histone 3 lysine 36 trimethylation (H3K36me3) in ccRCC. Furthermore, published epigenomic profiles are not specific to H3K36me3 or metastatic tumors. To determine if progressive SETD2 and H3K36me3 dysregulation occurs in metastatic tumors, H3K36me3, SETD2 copy number (CN) or SETD2 mRNA abundance was assessed in two independent cohorts: metastatic ccRCC (n=71) and the Cancer Genome Atlas Kidney Renal Clear Cell Carcinoma data set (n=413). Although SETD2 CN loss occurs with high frequency (>90%), H3K36me3 is not significantly impacted by monoallelic loss of SETD2. H3K36me3-positive nuclei were reduced an average of ~20% in primary ccRCC (90% positive nuclei in uninvolved vs 70% positive nuclei in ccRCC) and reduced by ~60% in metastases (90% positive in uninvolved kidney vs 30% positive in metastases) (P<0.001). To define a kidney-specific H3K36me3 profile, we generated genome-wide H3K36me3 profiles from four cytoreductive nephrectomies and SETD2 isogenic renal cell carcinoma (RCC) cell lines using chromatin immunoprecipitation coupled with high-throughput DNA sequencing and RNA sequencing. SETD2 loss of methyltransferase activity leads to regional alterations of H3K36me3 associated with aberrant RNA splicing in a SETD2 mutant RCC and SETD2 knockout cell line. These data suggest that during progression of ccRCC, a decline in H3K36me3 is observed in distant metastases, and regional H3K36me3 alterations influence alternative splicing in ccRCC.
ONTAgri : Scalable Service Oriented Agriculture Ontology for Precision Farming

Although the advancement in sensor technology made inch-by-inch monitoring of agricultural field achievable but precision farming requires monitoring of several context attributes with context modeling to cope up with several distinct problems. Ontology is considered as most promising technique for context modeling. Despite several efforts towards developing agricultural domain ontology, lack of scalable ontology is still a concern. This paper describes scalable service oriented agriculture ontology (ONTAgri) that comprises over several small groups of concepts. The two major groups are system and agriculture. Agriculture group is further divided into core and services (like irrigation, fertilization) concepts. The notation of service oriented ontology made scalability and distribution possible which is the basic need of agriculture domain modeling. Index Terms – Ontology, Context modeling, Precision farming, Sensor, Agriculture.
Contextos ecológicos: promotores de resiliência, fatores de risco e de proteção Ecological contexts: furthering resilience, risk and protection factors

This study presents a consolidation of aspects of protection and risk in human development, in several ecological contexts, such as the family, the institution and the school, taken from literature, and relates them to the furtherance of resilience. It also defines the concepts of the resilience process, protective and risk factors and offers considerations about children in risk situations. Urie Bronfenbrenner’s bioecological human development theory was used as a theoretical-methodological basis to analyze these contexts and factors of risk and/or protection. This theory addresses the study of development by integrating the understanding of the aspects of people’s lives, whether it be the period in which they live, the environments in which they participate or the relationships that are established. Irrespective of the context (family, institution or school), a variety of influences and life events may be classified as risk or as protection. However, this will depend on the quality and existence of emotional and social relationships, of the presence of affection and reciprocity that such environments provide. Uniterms: Ecological contexts. School. Family. Resilience.
Assessing protection against radiation exposure after prostate (125)I brachytherapy.

PURPOSE
To expand the radiation dose rate measurement data set by measuring radiation under various prostate (125)I brachytherapy situations.


METHODS AND MATERIALS
Measurements were obtained from 63 consecutive unselected patients at Tokyo Medical Center, Japan. Differences in factors during measurements, such as body postures, distances from the skin surface, and measurement directions were considered. Furthermore, shielding effects of lead-lined underwear, consisting mainly of 0.1-mm thickness of lead, were also assessed.


RESULTS
Radiation exposure varies according to the patient's body posture, with results differing as much as approximately 40.0% in measured radiation dose rates at 30cm from the anterior skin surface. Weight, body mass index, and tissue thickness showed good correlations with measured radiation dose rates. The magnitude of radiation exposure attenuation by shielding was approximately 95.8%, similar to the attenuation ratio based on tissue measurements made in the lateral direction. The respective mean times required to reach 1mSv were 1.2, 7.6, and 65.4 days in the standing position and 0.6, 4.6, and 40.4 days in the supine position at the site of contact, and at 30 and 100cm from the anterior skin surface.


CONCLUSIONS
This study obtained supplemental information pertaining to radiological protection and confirmed that shielding can be an effective tool for reducing exposures.
Feline acute intermittent porphyria: a phenocopy masquerading as an erythropoietic porphyria due to dominant and recessive hydroxymethylbilane synthase mutations.

Human acute intermittent porphyria (AIP), the most common acute hepatic porphyria, is an autosomal dominant inborn error of heme biosynthesis due to the half-normal activity of hydroxymethylbilane synthase (HMB-synthase). Here, we describe the first naturally occurring animal model of AIP in four unrelated cat lines who presented phenotypically as congenital erythropoietic porphyria (CEP). Affected cats had erythrodontia, brownish urine, fluorescent bones, and markedly elevated urinary uroporphyrin (URO) and coproporphyrin (COPRO) consistent with CEP. However, their uroporphyrinogen-III-synthase (URO-synthase) activities (deficient in CEP) were normal. Notably, affected cats had half-normal HMB-synthase activities and elevated urinary 5-aminolevulinic acid (ALA) and porphobilinogen (PBG), the deficient enzyme and accumulated metabolites in human AIP. Sequencing the feline HMB-synthase gene revealed different mutations in each line: a duplication (c.189dupT), an in-frame 3 bp deletion (c.842_844delGAG) identical to that causing human AIP and two missense mutations, c.250G>A (p.A84T) and c.445C>T (p.R149W). Prokaryotic expression of mutations c.842_844delGAG and c.445C>T resulted in mutant enzymes with <1% wild-type activity, whereas c.250G>A expressed a stable enzyme with approximately 35% of wild-type activity. The discolored teeth from the affected cats contained markedly elevated URO I and III, accounting for the CEP-like phenocopy. In three lines, the phenotype was an autosomal dominant trait, while affected cats with the c.250G>A (p.A84T) mutation were homozygous, a unique recessive form of AIP. These animal models may permit further investigation of the pathogenesis of the acute, life-threatening neurological attacks in human AIP and the evaluation of therapeutic strategies. GenBank Accession Numbers: GQ850461-GQ850464.
Content Based Recommendation System Using SOM and Latent Dirichlet Allocation Model

The content-based recommendation systems, is a systems that recommend any information to a user based upon a description of the page or document and a profile of the user’s interests. Content-based recommendation systems may be used in a variety of domains ranging from recommending web pages, news articles, restaurants, television programs, and items for sale. Although the details of various systems differ, content-based recommendation systems share in common a means for describing the items that may be recommended, a means for creating a profile of the user that describes the types of items the user likes, and a means of comparing items to the user profile to determine what to recommend. This paper presents a novel content-based recommendation method which recommends web pages content of a user’s recent interests in a page. Traditionally, a web page is recommended based on a comparison between a user’s profile and web contents that are represented as a set of feature keywords. This paper proposes a new approach to representing and extracting page using SOM and Latent Dirichlet Allocation (LDA) Model. Most of the techniques presented are based on URL or title of pages for recommendation this method is only based on content of a page for recommendation. This paper proposed Content Based Recommendation System Using Latent Dirichlet Allocation Model. Keywords— SOM, LDA, Recommendation system, data mining.