Miracle-dz/UniFAR-FTUs huggingface dataset:
Link prediction by correlation on social network

In a social network, the topology of the network grows through the formation of the link. the connection between two nodes in a social network indicates a confidence in terms of the similarity of some activities. Generally, a new link in the social network is created from different perspectives such as familiarity, cohesiveness, geographical locations etc. The concept of the link in the social network has been utilized to discover the hidden meaning of different fields such as e-commerce, bioinformatics and information retrieval. The prediction of a new link between two nodes in the social network is normally accomplished based on the nature of the topology and the similarity function among the nodes is defined with the help of the number of common friends. In this paper, we propose two link prediction algorithms: Local Link Prediction Algorithm and Global Link prediction by taking into consideration of user's activities as well as the common friends. We apply two formulas called correlation based cScore and influential score based iScore to measure the similarity between the two predicted nodes. Finally, we analyze the performance of the proposed algorithms by using DBLP, PPI, PB, and USAir data sets and the experimental result attests that our link predicted algorithm outperforms over the existing algorithms.
Dimensional analysis and scaling relevant to flow models of thrombus formation: communication from the SSC of the ISTH

Flow chambers are increasingly used to model thrombus formation in (patho)physiologically inspired geometries and conditions. The flexible design enabled by microfluidics and the variety of commercially available devices makes comparisons between flow chambers challenging [1]. There is also a need to make faithful comparisons between these in vitro models and animal models. Dimensional analysis and scaling provide a rigorous method for making these comparisons. Scaling is a mathematical tool used to simplify, characterize and design systems based on their dimensions and dynamics. Scaling arguments to describe biophysical mechanisms that regulate thrombus growth have recently appeared in hematology journals [2,3]. In practise, scaling involves selecting important dimensional and dynamic parameters and forming dimensionless groups that characterize a system [4]. These dimensionless groups determine the relative importance of geometric features, forces and rates. The purpose of this Communication is to provide a primer on scaling and provide recommendations for reporting and calculating relevant dimensionless groups in flow models of thrombus formation.
Analysis of arch‐like bones: The rodent mandible as a case study

Bone strength is determined by the mechanical properties of bone material, and the size and shape of the whole bone, i.e., its architecture. The mandible of vertebrates has been traditionally regarded as a beam oriented in relation to main masticatory loads, i.e., the longer dimension of its cross‐section being parallel to the load. Rodents follow this pattern but, in addition, their mandible possesses an intriguing arch‐like shape that is apparent when seen in the lateral view. Little attention was given to the structural capacity of this trait. The advantage of an arch is that it can withstand a greater load than a horizontal beam. The objective of this study was to model the rodent mandible like an arch to evaluate its structural strength. The bending moment in an arch‐like mandible was 15–25% lower with respect to a beam‐like mandible. Further, bending varies with mandible “slenderness” and incisor procumbency, a functionally relevant rodent trait. In the rodent Ctenomys talarum (Caviomorpha; Ctenomyidae), bone stress was substantially reduced when the mandible was modeled as an arch‐like structure as compared with a beam‐like structure, and safety factors were 15–34% higher. The shape of rodents' mandible might confer a functional advantage to high and repeatedly applied loads resulting from a unique feeding mode: gnawing. J. Morphol. 277:879–887, 2016. © 2016 Wiley Periodicals, Inc.
Effects of oral conjugated equine estrogens with or without medroxyprogesterone acetate on incident hypertension in the Women's Health Initiative hormone therapy trials

Objective: The aim of the study was to determine the effect of menopausal hormone therapy on incident hypertension in the two Women's Health Initiative hormone therapy trials and in extended postintervention follow-up. Methods: A total of 27,347 postmenopausal women aged 50 to 79 years were enrolled at 40 US centers. This analysis includes the subsample of 18,015 women who did not report hypertension at baseline and were not taking antihypertensive medication. Women with an intact uterus received conjugated equine estrogens (CEE; 0.625 mg/d) plus medroxyprogesterone acetate (MPA; 2.5 mg/d) (n = 5,994) or placebo (n = 5,679). Women with prior hysterectomy received CEE alone (0.625 mg/d) (n = 3,108) or placebo (n = 3,234). The intervention lasted a median of 5.6 years in the CEE plus MPA trial and 7.2 years in the CEE-alone trial with 13 years of cumulative follow-up until September 30, 2010. The primary outcome for these analyses was self-report of a new diagnosis of hypertension and/or high blood pressure requiring treatment with medication. Results: During the CEE and CEE plus MPA intervention phase, the rate of incident hypertension was 18% higher for intervention than for placebo (CEE: hazard ratio [HR], 1.18; 95% CI, 1.09-1.29; CEE plus MPA: HR, 1.18; 95% CI, 1.09-1.27). This effect dissipated postintervention in both trials (CEE: HR, 1.06; 95% CI, 0.94-1.20; CEE plus MPA: HR, 1.02; 95% CI, 0.94-1.10). Conclusions: CEE (0.625 mg/d) administered orally, with or without MPA, is associated with an increased risk of hypertension in older postmenopausal women. Whether lower doses, different estrogen formulations, or transdermal route of administration offer lower risks warrant further study.
Aspect-sentiment classification in opinion mining using the combination of rule-based and machine learning

Most online marketplaces in Indonesia provide review or feedback feature in order to enhance customer's satisfaction. However, there is a large number of unstructured opinions and every opinion can discuss one or more aspects. In this paper, we propose a combination of rule-based and machine learning approach to classify aspect and its sentiment of online marketplace opinions. We use Support Vector Machine and Naïve Bayes Classifier for classifying opinions. The evaluation uses 2960 reviews from various categories collected from Indonesian online marketplace site. The best method for quality, accuracy, service, communication, and delivery aspect is machine learning SVM with rule-based as one of the features while the best method for packaging and price aspect is using rule-based only. The average f-measures for all aspects ranging from 78.9% to 92%.
Central and Systemic Inflammation in Developmental Brain Injury

http://hdl.handle. net/2077/36912 Brain injury occurring during the perinatal period is an important cause of mortality and morbidity with potentially life long consequences. Both preterm and asphyxiated full term infants are at high risk of developing such injuries, and intrauterine infection has been identified as an independent risk factor. Whilst the primary causes of perinatal brain injury may be diverse and often elude diagnosis, inflammation is a common feature. We have analysed various aspects of inflammation in perinatal models of sterile and infectious insult. Our particular interests have been: initiation of central inflammation, central nervous system (CNS) recruitment of peripheral immune cells, and inflammation-induced disruption of CNS homeostasis and physiological processes. We demonstrate constitutive expression of all Toll-like receptors (TLRs), a sub-family of pathogen recognition receptors, in the neonatal CNS and active regulation of TLRs 1, 2, 5, 7 & 8 following, sterile, hypoxic-ischemic (HI) brain injury. We provide evidence of diminished lesion size in TLR2-KO mice, a result strongly implicating TLR2 as an important mediator of lesion development following HI. Additionally, we display active and prolonged recruitment of peripheral immune cells to the injured regions of the CNS following HI, a process that occurs in distinct “waves” and continues for up to two weeks. Interestingly, such recruitment was absent in a model of infectious insult, as initiated by peripheral administration of lipopolysaccharide (LPS). Here, numerous signs of enhanced central inflammation were observed. We detected acute increases in microglial proliferation and total number of microglia, changes coupled to regulation of several inflammation associated genes in the hippocampus. This increased hippocampal inflammatory profile was present for at least two weeks after administration of LPS and occurred in parallel to decreases of neuronal commitment among hippocampal progenitor cells. Together these results indicate involvement of the TLRs in rapid initiation of inflammation following HI and display active and prolonged participation of peripheral immune cells this inflammatory response. Additionally, we demonstrate that inflammation initiated outside the CNS is sufficient to upregulate cerebral inflammatory responses and transiently disrupt developmental microgliogenesis and neurogenesis. ABSTRACT Central and Systemic Inflammation in Developmental Brain Injury
Distinguishing benign and malignant breast tumors: preliminary comparison of kinetic modeling approaches using multi-institutional dynamic contrast-enhanced MRI data from the International Breast MR Consortium 6883 trial

Abstract. Comparative preliminary analysis of dynamic contrast-enhanced magnetic resonance imaging (DCE-MRI) data collected in the International Breast MR Consortium 6883 multicenter trial was performed to distinguish benign and malignant breast tumors. Prebiopsy DCE-MRI data from 45 patients with suspicious breast lesions were obtained. Semiquantitative mean signal-enhancement ratio (SERmean) was calculated for all lesions, and quantitative pharmacokinetic, parameters Ktrans, kep, and ve, were calculated for the subset with available T1 maps (n=35). Diagnostic performance was estimated for DCE-MRI parameters and compared to standard clinical MRI assessment. Quantitative and semiquantitative metrics discriminated benign and malignant lesions, with receiver operating characteristic area under the curve (AUC) values of 0.71, 0.70, and 0.82 for Ktrans, kep, and SERmean, respectively (p<0.05). At equal 94% sensitivity, the specificity and positive predictive value of SERmean (53% and 63%, respectively) and Ktrans (42% and 58%) were higher than clinical MRI assessment (32% and 54%). A multivariable model combining SERmean and clinical MRI assessment had an AUC value of 0.87. Quantitative pharmacokinetic and semiquantitative analyses of DCE-MRI improves discrimination of benign and malignant breast tumors, with our findings suggesting higher diagnostic accuracy using SERmean. SERmean has potential to help reduce unnecessary biopsies resulting from routine breast imaging.
Multilateration with ADS-B a boon in civil aviation application

Multilateration (MLAT) system is a technique that can be implemented in tracking military applications and also in an airport environment. This is also considered to be an integral part of A-SMGCS. This technique used for obtaining surveillance data to be combined with other sensors (e.g. SMR). This redundancy of radar sources and information are used to identify the unambiguous track of aircraft or vehicles which are equipped with an operational electronics or equivalent modes of interrogations. Multilateration is the process of locating an object by accurately computing the time difference of arrival (TDOA). The system determines the target location in two (or three) dimensions by solving the mathematical intersection of multiple hyperbolas (or hyperboloids). It is based on the TDOA principle. The Time Difference of Arrival between the two transponder's signals at several receiver sites. For 2D positioning, a minimum of 3 receivers are required (for the principle to work) and for 3D positioning at least 4 receivers are necessary. Since airport surveillance presents a difficult RF environment due to shadowing by buildings and other structures. The paper is generated after studying the open literature and the existing Passive Surveillance Systems marketed in the world. Simulation is carried out for a given location model and derived more accurate target identification. Paper consists of development of mathematical algorithms to determine the exact intersection of hyperbolas which are generated by computing the simultaneous Time Difference of Arrival of the pulse between a pair of Receiving Stations.
The Novel Oncolytic Adenoviral Mutant Ad5-3Δ-A20T Retargeted to αvβ6 Integrins Efficiently Eliminates Pancreatic Cancer Cells

Metastatic pancreatic ductal adenocarcinomas (PDAC) are incurable due to the rapid development of resistance to all current therapeutics. Oncolytic adenoviral mutants have emerged as a promising new strategy that negates such resistance. In contrast to normal tissue, the majority of PDACs express the αvβ6 integrin receptor. To exploit this feature, we modified our previously reported oncolytic adenovirus, AdΔΔ, to selectively target αvβ6 integrins to facilitate systemic delivery. Structural modifications to AdΔΔ include the expression of the small but potent αvβ6-binding peptide, A20FMDV2, and ablation of binding to the native coxsackie and adenovirus receptor (CAR) within the fiber knob region. The resultant mutant, Ad5-3Δ-A20T, infected and killed αvβ6 integrin–expressing cells more effectively than the parental wild-type (Ad5wt) virus and AdΔΔ. Viral uptake through αvβ6 integrins rather than native viral receptors (CAR, αvβ3 and αvβ5 integrins) promoted viral propagation and spread. Superior efficacy of Ad5-3Δ-A20T compared with Ad5wt was demonstrated in 3D organotypic cocultures, and similar potency between the two viruses was observed in Suit-2 in vivo models. Importantly, Ad5-3Δ-A20T infected pancreatic stellate cells at low levels, which may further facilitate viral spread and cancer cell elimination either as a single agent or in combination with the chemotherapy drug, gemcitabine. We demonstrate that Ad5-3Δ-A20T is highly selective for αvβ6 integrin–expressing pancreatic cancer cells, and with further development, this new and exciting strategy can potentially be extended to improve the systemic delivery of adenoviruses to pancreatic cancer patients. Mol Cancer Ther; 17(2); 575–87. ©2018 AACR.
The intersection of intimate partner violence and HIV risk among women engaging in transactional sex in Ugandan fishing villages

ABSTRACT Intimate partner violence (IPV) may increase risk for HIV/AIDS among women engaging in transactional sex in Ugandan fishing communities. In this cross-sectional study, 115 women reporting engaging in transactional sex in Lake Victoria fishing communities completed a computerized interview. We tested associations between IPV and other HIV risk factors, with unprotected sex and HIV status, and tested moderators of the IPV-HIV risk relationship. Women reporting recent sexual IPV reported 3.36 times more unprotected sex acts (AdjExp[B] = 3.36, 95% CI = 1.29–8.69, p = 0.07). The effect of sexual IPV on sexual risk was significantly greater among alcohol and fish sellers compared to sex workers (interaction: Exp[B] = 12.29, 95% CI = 5.06–29.85, p < 0.001). Women reporting any sexual IPV were nearly four times more likely to report being HIV positive than women reporting no sexual IPV (AOR = 3.94, 95% CI = 1.22–12.66, p = 0.02). Integrated IPV and HIV interventions are needed in this context, especially among alcohol and fish sellers engaging in transactional sex.
Effects of impurities on charge transport in graphene field-effect transistors

In order to push the upper frequency limit of high speed electronics further, thereby extending the range of applications, new device technologies and materials are continuously investigated. The 2D material graphene, with its intrinsically extremely high room temperature charge carrier velocity, is regarded as a promising candidate to push the frequency limit even further. However, so far most fabrication processes unintentionally introduce impurities at the interface between graphene and adjacent materials, which affect the performance. Additionally, due to the lack of a band gap, the important power gain parameter, the maximum frequency of oscillation ($f_\text{max}$), is not impressively high. In this thesis, results of the studies of the effect of impurities on charge transport in a graphene field effect transistor (GFETs) are presented. This study was performed was done by, firstly, setting up a semi-empirical model describing the influence of impurities, i.e., interface states on capacitance and transfer characteristics at low electric fields and, secondly, by developing a method for studying the limiting mechanisms of the charge carrier velocity in the graphene channel at high electric fields. It was found that uncertainties in the material parameters of graphene, such as the Fermi velocity, hamper the possibility to find the correct mobility value by direct measurements on a GFET. Furthermore, it was shown that remote optical phonons limit the saturation velocity and charge carriers emitted from interface states at high fields are preventing the current to saturate and, hence, restricting $f_\text{max}$. By studying the effects and the limitations set by impurities and other parasitic effects in the GFET it is possible to clarify strategies for further development of GFETs towards reliable performance and higher $f_\text{max}$. As is shown in this work, it is necessary to develop a fabrication process which results in clean interfaces and adjacent materials with higher optical phonon energies than today.
Identification of a Rare Germline Heterozygous Deletion Involving the Polycistronic miR-17–92 Cluster in Two First-Degree Relatives from a BRCA 1/2 Negative Chilean Family with Familial Breast Cancer: Possible Functional Implications

Micro-RNAs (miRNAs) have emerged as novel gene expression regulators. Recent evidence strongly suggests a role for miRNAs in a large variety of cancer-related pathways. Different studies have shown that 18.7 to 37% of all human miRNA genes are clustered. miR-17–92 polycistronic cluster overexpression is associated with human hematolymphoid and solid malignancies including breast cancer (BC). Here, we report the identification of rs770419845, a rare 6 bp deletion located within the polycistronic miR-17–92 cluster, in two first-degree relatives from a Chilean family with familial BC and negative for point mutations in BRCA 1/2 genes. The deletion was identified by Sanger sequencing when 99 BRCA1/2 mutation-negative BC cases with a strong family history were initially screened. In silico analysis predicts that rs770419845 affects the secondary structure and stability of the pre-miR-17–pre-miR-18 region and the entire 17–92 cluster. The deletion was screened in 458 high-risk BRCA1/2-negative Chilean families and 480 controls. rs770419845 was not detected in any control but identified in a single family with two cases of BC and other cancers. Both BC cases, the mother and her daughter, carried the deletion. Based on bioinformatic analyses, the location of the deletion and its low frequency, we presume rs770419845 may be a pathogenic variant. Functional studies are needed to support this hypothesis.
A Metastructure for Thesauri in Archaeology

Controlled terminology becomes increasingly important for archeological documentation and information retrieval in wide area networks. Even though there is a vast literature on thesaurus creation, the logical organization, the "metastructure" of a thesaurus is still rather unreflected, in particular in the more abstract layers. So-called facet indicators are distributed intuitively in order to group a set of sibling terms by an implicit property. They can be regarded as potential elements of a metastructure. The Greek Ministry of Culture is developing a general purpose thesaurus for archeology in cooperation with ICS-FORTH. Based on contextual and phenomenal notions, an extensible, systematic metastructure for terminology in archeology is proposed, which seems to be more comprehensive than traditional approaches. This paper discusses the benefits of such an approach. In particular, the proposed structure seems to provide a better understanding of the implicit criteria intrinsic to object classification terms and the relation between compound expressions and traditional terms.
Estimating nonlinear effects of fiscal policy using quantile regression methods

We estimate nonlinear effects of government spending shocks on US macroeconomic activity using quantile regression methods. This amounts to allowing regression parameters to depend on how far output or the unemployment rate are from their means, conditional on past explanatory variables. Applying quantile methods to vector autoregressions and local projections as an alternative way to estimate impulse response functions, we find the output effects of fiscal policy to be notably larger for lower quantiles of the conditional output distribution. Conversely, higher government spending appears to lower the rate of unemployment considerably only at its highest deciles.
Cumulative consumption of branched-chain amino acids and incidence of type 2 diabetes.

BACKGROUND Plasma branched-chain amino acids (BCAAs, including leucine, isoleucine and valine) were recently related to risk of type 2 diabetes (T2D). Dietary intake is the only source of BCAAs; however, little is known about whether habitual dietary intake of BCAAs affects risk of T2D. METHODS We assessed associations between cumulative consumption of BCAAs and risk of T2D among participants from three prospective cohorts: the Nurses' Health Study (NHS; followed from 1980 to 2012); NHS II (followed from 1991 to 2011); and the Health Professionals Follow-up Study (HPFS; followed from 1986 to 2010). RESULTS We documented 16 097 incident T2D events during up to 32 years of follow-up. After adjustment for demographics and traditional risk factors, higher total BCAA intake was associated with an increased risk of T2D in men and women. In the meta-analysis of all cohorts, comparing participants in the highest quintile with those in the lowest quintile of intake, hazard ratios (95%confidence intervals) were for leucine 1.13 (1.07-1.19), for isoleucine 1.13 (1.07-1.19) and for valine 1.11 (1.05-1.17) (all P for trend < 0.001). In a healthy subsample, higher dietary BCAAs were significantly associated with higher plasma levels of these amino acids (P for trend = 0.01). CONCLUSIONS Our data suggest that high consumption of BCAAs is associated with an increased risk of T2D.