Miracle-dz/UniFAR-FTUs huggingface dataset:
Orthogonal analytical approaches to detect potential contaminants in heparin

Heparin is a widely used anticoagulant and antithrombotic agent. Recently, a contaminant, oversulfated chondroitin sulfate (OSCS), was discovered within heparin preparations. The presence of OSCS within heparin likely led to clinical manifestations, most prevalently, hypotension and abdominal pain leading to the deaths of several dozens of patients. Given the biological effects of OSCS, one continuing item of concern is the ability for existing methods to identify other persulfonated polysaccharide compounds that would also have anticoagulant activity and would likely elicit a similar activation of the contact system. To complete a more extensive analysis of the ability for NMR and capillary electrophoresis (CE) to capture a broader array of potential contaminants within heparin, we completed a systematic study of NMR, both mono- and bidimensional, and CE to detect both various components of sidestream heparin and their persulfonated derivatives. We show that given the complexity of heparin samples, and the requirement to ensure their purity and safety, use of orthogonal analytical techniques is effective at detecting an array of potential contaminants that could be present.
The Effects of Ginkgo Biloba Extract EGb 761 on Mechanical and Cold Allodynia in a Rat Model of Neuropathic Pain

BACKGROUND: Neuropathic pain is chronic pain that is caused by an injury to the peripheral or central nervous system. The symptoms of neuropathic pain are continuing pain, hyperalgesia, and allodynia. Ginkgo biloba extract is an oriental herbal medicine that has various pharmacological actions. We examined the effect of Ginkgo biloba extract, EGb 761, on the mechanical and cold allodynia in a rat model of neuropathic pain. METHODS: Male Sprague-Dawley rats were prepared by tightly ligating the left L5 and L6 spinal nerves. All the rats developed mechanical and cold allodynia 7 days after surgery. Fifty neuropathic rats were assigned into five groups for the intraperitoneal administration of drugs. The study was double-blind and the order of the treatments was randomized. Normal saline and EGb 761 (50, 100, 150, and 200 mg/kg) were administered, respectively, to the individual groups. We examined mechanical and cold allodynia at preadministration and at 15, 30, 60, 90, 120, 150, and 180 min after intraperitoneal drug administration. Mechanical allodynia was quantified by measuring the paw withdrawal threshold to stimuli with von Frey filaments of 1.0, 1.4, 2.0, 4.0, 6.0, 8.0, 10.0, 12.0, 15.0, and 26.0 g. Cold allodynia was quantified by measuring the frequency of foot lift with applying 100% acetone. We measured the locomotor function of the neuropathic rats by using the rotarod test to reveal if EGb 761 has side effects, such as sedation or reduced motor coordination. RESULTS: The control group showed no differences for mechanical and cold allodynia. For the EGb 761 groups, the paw withdrawal thresholds to mechanical stimuli and withdrawal frequencies to cold stimuli were significantly reduced versus the preadministration values and versus the control group. The duration of antiallodynic effects increased in a dose-dependent fashion, and these were maintained for 120 min at the highest dose (P < 0.05). Only at the highest dose (200 mg/kg) did EGb 761 reduce the rotarod performance time. CONCLUSION: We conclude that Ginkgo biloba extract, EGb 761, attenuates mechanical and cold allodynia in a rat model of neuropathic pain, and it may be useful for the management of neuropathic pain.
Smoking among tuberculosis patients in Kerala, India: proactive cessation efforts are urgently needed.

OBJECTIVES To document smoking patterns among tuberculosis (TB) patients at eight different points of time before, during and after treatment, and to investigate the frequency and content of the quit smoking messages they received. DESIGN A stratified random sample of 215 male TB patients from Kerala, India, who had completed treatment in the previous 9 months was surveyed using a pre-tested semi-structured interview schedule. RESULTS Six months prior to diagnosis, 94.4% of male TB patients were ever smokers and 71.2% were current smokers. Although 87% of patients had quit smoking soon after diagnosis, 36% had relapsed by 6 months post treatment. One third relapsed during the first 3 months of treatment and another third during the next 3 months of treatment. Two thirds of all smokers received cessation advice from primary care physicians, but less than half received advice from others. Less than half of all messages were TB-specific; the rest were very general short instructions. Smoking more than 15 cigarettes/bidis at the time of diagnosis was significantly associated with a lower quit rate during treatment (OR 8.0, 95%CI 2.1-30.9). CONCLUSION Messages to not smoke often go unheeded among TB patients. Proactive efforts are needed to encourage health staff and DOTS providers to give strong cessation messages.
D-Dimer is an early diagnostic marker of coronary ischemia in patients with chest pain.

BACKGROUND Chest pain is a frequent symptom in the emergency department and often presents a diagnostic challenge. Because coronary thrombosis is a hallmark of acute ischemic syndromes, the substrates of the coagulation and fibrinolysis cascades may be markers of coronary ischemia. The objective of this study was to determine the diagnostic value of several hemostatic markers in patients presenting to the emergency department (ED) with chest pain syndromes. METHODS Two hundred fifty-seven consecutive patients with acute chest pain were studied in this prospective study conducted in an urban ED. D-Dimer levels were measured at admission to the ED in all patients. We also measured thrombin-antithrombin complexes, prothrombin fragment 1+2, activated factor VII, and fibrinogen. We used regression analysis to estimate the likelihood of myocardial infarction and the diagnostic value of D-dimer. RESULTS D-Dimer and fibrinogen levels were significantly higher in patients with acute ischemic events (myocardial infarction and unstable angina) than in nonischemic patients (P <.01 and P =.02, respectively). The other hemostatic markers were not significantly elevated in patients with ischemic events. D-Dimer level >500 microg/L had an independent diagnostic value for myocardial infarction and increased the diagnostic sensitivity of the electrocardiogram and history from 73% to 92%. CONCLUSION D-Dimer, an expression of ongoing thrombus formation and lysis, is a marker of substantial incremental value for the early diagnosis of acute coronary syndromes presenting with chest pain. It adds independent information to the traditional assessment for myocardial infarction. D-Dimer can be incorporated into clinical decision models in the ED.
AntiWare: An automated Android malware detection tool based on machine learning approach and official market metadata

The prevalence of mobile devices has increased rapidly in recent years. People store valuable data like personal and financial information on those devices. In addition, applying “bring your own device (BYOD)” policy in companies has become popular. Hence, mobile devices are also source of valuable and confidential company information. Accordingly, there is a growing need for malware detection methods and tools to protection mobile devices against attacks targeting them. In this study, an automated feature-based static analysis method is applied to detect malicious mobile applications on Android devices. By utilizing the metadata of applications on the official market and an online free malware scanner, the feasibility of a mobile malware detection model using free public sources and having quite acceptable accuracy rates is shown. As opposed to previous studies considering only the requested permissions as feature set, additional market metadata including but not limited to application category, download number, developer name, and average rating are included in the analysis as the feature set for training supervised classification algorithms. Based on an experimental evaluation of the majority voting of antivirus (AV) engines on the free online AV community, applications in the training set are labeled as malicious or benign. Naïve Bayes classification algorithm is chosen as supervised learning algorithm for the detection task. In addition, as filter-based algorithms, Chi-Square, Information Gain and ReliefF feature selection methods are used for overcoming potential overfitting problems. Finally, a quick prototype for showing the feasibility of the detection model is demonstrated with sample case applications.
Cortisol levels and history of depression in acute coronary syndrome patients

Background Depressed mood following an acute coronary syndrome (ACS) is a risk factor for future cardiac morbidity. Hypothalamic–pituitary–adrenal (HPA) axis dysregulation is associated with depression, and may be a process through which depressive symptoms influence later cardiac health. Additionally, a history of depression predicts depressive symptoms in the weeks following ACS. The purpose of this study was to determine whether a history of depression and/or current depression are associated with the HPA axis dysregulation following ACS. Method A total of 152 cardiac patients completed a structured diagnostic interview, a standardized depression questionnaire and a cortisol profile over the day, 3 weeks after an ACS. Cortisol was analysed using: the cortisol awakening response (CAR), total cortisol output estimated using the area under the curve method, and the slope of cortisol decline over the day. Results Total cortisol output was positively associated with history of depression, after adjustment for age, gender, marital status, ethnicity, smoking status, body mass index (BMI), Global Registry of Acute Cardiac Events (GRACE) risk score, days in hospital, medication with statins and antiplatelet compounds, and current depression score. Men with clinically diagnosed depression after ACS showed a blunted CAR, but the CAR was not related to a history of depression. Conclusions Patients with a history of depression showed increased total cortisol output, but this is unlikely to be responsible for associations between depression after ACS and later cardiac morbidity. However, the blunted CAR in patients with severe depression following ACS indicates that HPA dysregulation is present.
Allergic rhinitis is associated with poor asthma control in children with asthma

Background Asthma and allergic rhinitis are the two most common chronic disorders in childhood and adolescence. To date, no study has examined the impact of comorbid allergic rhinitis on asthma control in children. Objective To examine the prevalence of allergic rhinitis in children with asthma, and the impact of the disease and its treatment on asthma control. Methods A cross-sectional survey in 203 children with asthma (5–18 years) using validated questionnaires on rhinitis symptoms (stuffy or runny nose outside a cold) and its treatment, and the paediatric Asthma Control Questionnaire (ACQ). Fraction of nitric oxide in exhaled air (FeNO) was measured with a Niox Mino analyser; total and specific IgE levels were assessed by the Immunocap system. Results 157 children (76.2%) had symptoms of allergic rhinitis but only 88 of these (56.1%) had been diagnosed with the condition by a physician. ACQ scores were worse in children with allergic rhinitis than in those without the condition (p=0.012). An ACQ score ≥1.0 (incomplete asthma control) was significantly more likely in children with allergic rhinitis than in those without (OR 2.74, 95% CI 1.28 to 5.91, p=0.0081), also after adjustment for FeNO levels and total serum IgE. After adjustment for nasal corticosteroid therapy, allergic rhinitis was no longer associated with incomplete asthma control (OR 0.72, 95% CI 0.47 to 1.12, p=0.150). Conclusion Allergic rhinitis is common in children with asthma, and has a major impact on asthma control. The authors hypothesise that recognition and treatment of this condition with nasal corticosteroids may improve asthma control in children, but randomised clinical trials are needed to test this hypothesis.
Short and long term performance of concrete structures repaired/strengthened with FRP

M. I. Kabir vi Abstract Fibre Reinforced Polymer (FRP) composites have lately become a popular choice for strengthening and/or repairing of reinforced concrete (RC) structures due to their advantageous properties such as high strengthto-weight ratio, high corrosion resistance and easy application process. As the performance of FRP bonded RC structures depends on the effective stress transfer between FRP and concrete, extensive research has been conducted on the FRP-concrete bond system under short term loads. However, studies on the long term performance of FRP-concrete bond subjected to environmental conditions are very limited. Experimental studies on the long term performance of FRP strengthened structures todate include the study of the effect of various environmental conditions using a variety of test set-ups such as pull-off, bending tests of beams and direct shear tests. However, the available studies based on various conditions and set-ups make it difficult to compare the findings. As the effectiveness of FRP-strengthening schemes, either used for flexural or shear strengthening, lies in the shear stress transfer between FRP and concrete, study of FRP-concrete bond subjected to different environmental conditions by direct shear tests were suggested by some of the researchers. Even sensitivity of this set-up to environmental conditions was also reported. Therefore, more research with similar test set-ups to create a large database of FRP-concrete bond behaviour under various environmental conditions can be of immense value. In addition, using very high temperature for accelerated ageing was found to be very common in available literatures. However, in reality structures may not be exposed to such high temperatures and using high temperature may lead to conservative prediction of long-term properties. Moreover, unavailability of test data for FRP-concrete bond subjected to natural ageing observed in the existing literatures necessitates the investigation on FRP-concrete behaviour under natural environment. In regards to the short term performance of reinforced concrete beams strengthened and/or repaired with FRP, extensive research have been conducted to-date in terms of experimental and analytical study. Some of these studies have also proposed design guidelines. However, the equations for prediction of load carrying capacity of severely
Personal Information Management vs. Resource Sharing: Towards a Model of Information Behavior in Social Tagging Systems

Social tagging systems allow users to upload and assign keywords to digital resources. Thus a body of user annotated resources gradually evolves: Users can share resources, re-find their own resources or use the systems as search engines for items added by the whole user population. In this paper we want to contribute towards a better understanding of usage patterns within social tagging systems by presenting results from a survey of 142 users of the systems. Flickr, Youtube, Delicious and Connotea. Data was gathered partly by using the Mechanical Turk service, and partly via an announcement on the Connotea blog. Our study reveals differences of user motivation and tag usage between systems. While (resource) sharing emerges as an all-embracing intra-system motivation, users differ with respect to social spheres of sharing. Based on our results which we integrated with earlier research from Cool and Belkin (2002), we propose a model of information behaviour in social tagging systems.
p62/SQSTM1 Binds Directly to Atg8/LC3 to Facilitate Degradation of Ubiquitinated Protein Aggregates by Autophagy*

Protein degradation by basal constitutive autophagy is important to avoid accumulation of polyubiquitinated protein aggregates and development of neurodegenerative diseases. The polyubiquitin-binding protein p62/SQSTM1 is degraded by autophagy. It is found in cellular inclusion bodies together with polyubiquitinated proteins and in cytosolic protein aggregates that accumulate in various chronic, toxic, and degenerative diseases. Here we show for the first time a direct interaction between p62 and the autophagic effector proteins LC3A and -B and the related γ-aminobutyrate receptor-associated protein and γ-aminobutyrate receptor-associated-like proteins. The binding is mediated by a 22-residue sequence of p62 containing an evolutionarily conserved motif. To monitor the autophagic sequestration of p62- and LC3-positive bodies, we developed a novel pH-sensitive fluorescent tag consisting of a tandem fusion of the red, acid-insensitive mCherry and the acid-sensitive green fluorescent proteins. This approach revealed that p62- and LC3-positive bodies are degraded in autolysosomes. Strikingly, even rather large p62-positive inclusion bodies (2 μm diameter) become degraded by autophagy. The specific interaction between p62 and LC3, requiring the motif we have mapped, is instrumental in mediating autophagic degradation of the p62-positive bodies. We also demonstrate that the previously reported aggresome-like induced structures containing ubiquitinated proteins in cytosolic bodies are dependent on p62 for their formation. In fact, p62 bodies and these structures are indistinguishable. Taken together, our results clearly suggest that p62 is required both for the formation and the degradation of polyubiquitin-containing bodies by autophagy.
Robust Sparse Regression under Adversarial Corruption

We consider high dimensional sparse regression with arbitrary - possibly, severe or coordinated - errors in the covariates matrix. We are interested in understanding how many corruptions we can tolerate, while identifying the correct support. To the best of our knowledge, neither standard outlier rejection techniques, nor recently developed robust regression algorithms (that focus only on corrupted response variables), nor recent algorithms for dealing with stochastic noise or erasures, can provide guarantees on support recovery. As we show, neither can the natural brute force algorithm that takes exponential time to find the subset of data and support columns, that yields the smallest regression error. We explore the power of a simple idea: replace the essential linear algebraic calculation - the inner product - with a robust counterpart that cannot be greatly affected by a controlled number of arbitrarily corrupted points: the trimmed inner product. We consider three popular algorithms in the uncorrupted setting: Thresholding Regression, Lasso, and the Dantzig selector, and show that the counterparts obtained using the trimmed inner product are provably robust.
A Multi-Generation Sublethal Assay of Phenols Using the Nematode Caenorhabditis elegans

The nematode Caenorhabditis elegans (C. elegans) was used for a multiple-generation toxicity bioassay of phenols. We examined the sublethal toxicity (fecundity and reproduction) of bisphenol A (BisA), 4-(1-adamantyl) phenol (Adp), and 4,4′-(1,3-adamantanediyl) diphenol (AdDP) over five generations using a Nematode Growth Medium (NGM) 1.7% agar plate. In the fourth generation, the phenols affected the fecundity rate of C. elegans at doses 100- to 10000-fold lower than the LC50s. In particular, at 1 nM BisA, the number of worms decreased significantly to about 50% of control (p < 0.05). A comparison of the number of viable worms and eggs suggested that the phenols exert hatching toxicity. In addition, individuals with an abnormality in the vulva, which could not ovulate, appeared on the phenol-containing plates. We confirmed that phenols disrupt reproduction in C. elegans and that the method using NGM agar plates facilitates multi-generational toxicity tests of chemicals that are poorly soluble in water.
A Novel Association Between Polycystic Ovary Syndrome and Helicobacter pylori

Background:Polycystic ovary syndrome (PCOS) is one of the most common endocrinopathies. Chronic infections may increase the risk of infertility. Helicobacter pylori infection has been found to be associated with infertility, and PCOS is also one of the most common causes of infertility. To the best of our knowledge, the possible association between H. pylori seropositivity and PCOS has never been investigated. Methods:We performed a prospective study between a group of PCOS subjects and an age-matched group of controls. This prospective study included 35 women (mean age, 25 ± 5 years) with PCOS, selected by using revised diagnostic criteria of European Society for Human Reproduction and Embryology and the American Society for Reproductive Medicine 2003, who were compared with their age-matched control group (50 women; mean age, 26 ± 5 years). The 1-step H. pylori test device was used to detect IgG-type antibodies to H. pylori in serum, to aid in the diagnosis of H. pylori infection. Results:H. pylori seropositivity was found to be significantly higher in the PCOS group (PCOS 40%; control 22%; P = 0.007). Conclusion:We suggest a possible association between H. pylori seropositivity and PCOS. It is early to state that H. pylori is a new etiological factor for PCOS or the association of PCOS and H. pylori infection is coincidental with these data. Further studies evaluating more subjects are required.
Differential expression of preproenkephalin and preprodynorphin mRNAs in striatal neurons: high levels of preproenkephalin expression depend on cerebral cortical afferents

Preproenkephalin and preprodynorphin mRNAs can be detected by in situ hybridization in medium-sized striatal neurons in normal rats and in rats with unilateral cerebral cortical lesions. Hybridization of 35S- labeled oligonucleotide cDNAs complementary to specific regions of each mRNA reveals that preproenkephalin-expressing neurons are more numerous than cells expressing preprodynorphin. Hybridization densities above enkephalin-positive neurons are also more than twice those noted above preprodynorphin-expressing cells. Northern analyses of mRNA extracted from the striatum are consistent with these relationships. The striatal preproenkephalin hybridization densities are decreased ipsilateral to cerebral cortical lesions; this change evolves largely between 1 and 5 d following the lesion. Striatal preproenkephalin mRNA is thus more prominent than preprodynorphin mRNA and depends on cerebral cortical inputs for its full expression.
Is Noise Trading Cancelled Out by Aggregation?

Conventional wisdom suggests that investors' independent biases should cancel each other out and have little impact on equilibrium at the aggregate level. In contrast to this intuition, this paper analyzes models with biased investors and finds that biases often have a significant impact on the equilibrium even if they are independent across investors. First, independent biases affect the equilibrium asset price if investor demand for the asset is a nonlinear function of the bias. Second, even if the demand function is linear in the bias, it may still have a significant impact on the equilibrium because of the fluctuation of the wealth distribution. An initial run-up of the stock price makes optimistic investors richer, which then further pushes the stock price up and leads to lower future returns. This effect can lead to price overshooting, i.e., a negative expected future return. Similarly, an initial drop of the stock price leads to higher future returns. Simple calibrations show that a modest amount of biases can have a large impact on the equilibrium.