LLukas22/scidocs huggingface dataset:
The aesthetic smile: diagnosis and treatment.

Until recently, dentists’ and the public’s concept of dental aesthetics was necessarily limited to alterations of the teeth themselves. Dentists concerned themselves with changing the position, the shape and the color of the teeth basically restoring missing units or enhancing those already present. For the most part the dentist was forced to accept the pre-existing relationship between the three components of the smile; the teeth, the gingival scaffold and the lips. Interestingly, the restorative dentist’s concept of aesthetics varied considerably from that practiced by removable prosthodontists where, in the full denture set-up, they could not only select the most desirable shape and color of denture tooth concomitant with the patient’s facial features but could position them in the optimal relationship with regards to the upper lip, the lower lip and the commissures of the mouth thereby creating the desired ideal smile. The three basic tenets germaine to optimal aesthetics in removable prosthetics were not really a part of the restorative dentist’s rules, as any changes in the pre-existing lip-tooth-gingival relationships were thought to necessitate longterm orthodontic therapy, often in combination with orthognathic surgery or aggressive periodontal procedures. Today much of this has changed; with the advent of soft tissue periodontal plastic procedures designed to enhance dentofacial harmony following the same basic tenets as those of the removable prosthodontist. The domain of periodontics has changed from being strictly a health service to one where smile enhancement has been brought to the forefront of treatment planning. The essentials of a smile involve the relationships between the three primary components: the teeth lip framework the gingival scaffold.
Women's Education Level, Maternal Health Facilities, Abortion Legislation and Maternal Deaths: A Natural Experiment in Chile from 1957 to 2007

BACKGROUND
The aim of this study was to assess the main factors related to maternal mortality reduction in large time series available in Chile in context of the United Nations' Millennium Development Goals (MDGs).


METHODS
Time series of maternal mortality ratio (MMR) from official data (National Institute of Statistics, 1957-2007) along with parallel time series of education years, income per capita, fertility rate (TFR), birth order, clean water, sanitary sewer, and delivery by skilled attendants were analysed using autoregressive models (ARIMA). Historical changes on the mortality trend including the effect of different educational and maternal health policies implemented in 1965, and legislation that prohibited abortion in 1989 were assessed utilizing segmented regression techniques.


RESULTS
During the 50-year study period, the MMR decreased from 293.7 to 18.2/100,000 live births, a decrease of 93.8%. Women's education level modulated the effects of TFR, birth order, delivery by skilled attendants, clean water, and sanitary sewer access. In the fully adjusted model, for every additional year of maternal education there was a corresponding decrease in the MMR of 29.3/100,000 live births. A rapid phase of decline between 1965 and 1981 (-13.29/100,000 live births each year) and a slow phase between 1981 and 2007 (-1.59/100,000 live births each year) were identified. After abortion was prohibited, the MMR decreased from 41.3 to 12.7 per 100,000 live births (-69.2%). The slope of the MMR did not appear to be altered by the change in abortion law.


CONCLUSION
Increasing education level appears to favourably impact the downward trend in the MMR, modulating other key factors such as access and utilization of maternal health facilities, changes in women's reproductive behaviour and improvements of the sanitary system. Consequently, different MDGs can act synergistically to improve maternal health. The reduction in the MMR is not related to the legal status of abortion.
Nocturnal peak in atrial tachyarrhythmia occurrence as a function of arrhythmia burden.

INTRODUCTION
We examined circadian periodicity of atrial tachyarrhythmias (AT/AF) in a large group of patients with implantable devices, which allow continuous collection of the event data over prolonged periods of time.


METHODS AND RESULTS
A total of 16,130 AT/AF events were recorded in 236 patients (age: 63 ± 12 years, 27% female, 90% had a history of cardiovascular disease, 33% ischemic, LVEF: 49 ± 18%) over a period of 12 months. To exclude interactions with therapy, the patterns of arrhythmia occurrence were examined for all events and for those episodes that were preceded by at least 1, 6, and 24 hours of sinus rhythm. To prevent biasing toward patients with more frequent episodes, the patterns of AT/AF onset were analyzed both in absolute and patient-normalized (i.e., divided by the total number of events in each patient) units per hour per patient and then summarized for the entire group. In patients with <4 AT/AF events, the onset times were randomly distributed over 24-hour period. However, as the number of AT/AF events increased, a nocturnal pattern of occurrence (determined by the occurrence of a trough around noon) gradually emerged and became highly statistically significant (P < 10(-4) ). The magnitude of nocturnal peak of AT/AF events was well explained by a single-exponential function (R(2) = 0.97, P < 10(-2) ).


CONCLUSION
Patients with more frequent atrial tachyarrhythmias are more likely to develop AT/AF at night. Knowledge of patient-specific circadian patterns of arrhythmia occurrence can be useful for personalized management of individuals with significant arrhythmia burden.
The association between time spent outdoors and myopia using a novel biomarker of outdoor light exposure.

PURPOSE
We sought to determine whether conjunctival ultraviolet autofluorescence (UVAF), a biomarker of outdoor light exposure, is associated with myopia.


METHODS
We performed a cross-sectional study on Norfolk Island and recruited individuals aged ≥ 15 years. Participants completed a sun-exposure questionnaire and underwent non-cycloplegic autorefraction. Conjunctival UVAF used a specially adapted electronic flash system fitted with UV-transmission filters (transmittance range 300-400 nm, peak 365 nm) as the excitation source. Temporal and nasal conjunctival UVAF was measured in both eyes using computerized photographic analysis with the sum referred to as "total UVAF."


RESULTS
In 636 participants, prevalence of myopia decreased with an increasing quartile of total UVAF (P(trend) = 0.002). Median total UVAF was lower in subjects with myopia (spherical equivalent [SE] ≤ -1.0 diopter [D]) than participants without myopia: 16.6 mm(2) versus 28.6 mm(2), P = 0.001. In the multivariable model that adjusted for age, sex, smoking, cataract, height and weight, UVAF was independently associated with myopia (SE ≤ -1.0 D): odds ratio (OR) for total UVAF (per 10 mm(2)) was 0.81, 95% confidence interval (CI) 0.69 to 0.94, P = 0.007. UVAF was also significantly associated with myopia when analysis was restricted to subjects <50 years, and in moderate-severe myopia (SE ≤ -3.0 D). Prevalence of myopia decreased with increasing time outdoors (P(trend) = 0.03), but time outdoors was not associated with myopia on multivariable analysis.


CONCLUSIONS
Study authors identified a protective association between increasing UVAF and myopia. The protective association of higher UVAF against myopia was stronger than that of increased levels of time spent outdoors as measured by this study's questionnaire. Future studies should investigate the association between UVAF and incident myopia, and its relationship to myopic progression.
Cascading microstructures in aluminum-steel interfaces created by impact welding

Abstract With the growing need to develop light weight structures joining dissimilar metals is inevitable. Hence a fundamental understanding of the microstructure evolution and bond formation mechanism is necessary. In this work we probe the welded interface in aluminum and steel joined using vaporizing foil actuator welding (VFAW) a novel impact welding process. The goal of such a detailed characterization campaign is to understand the bond formation mechanism. The study shows that the interfacial microstructure has a pronounced hierarchical nature. At the macro scale, the interface is characterized by a wavy interface which is a result of extensive plastic deformation that accompanies the process. Detailed transmission electron microscopy shows evidence for the formation of a liquid film at the interface resulting in significant inter diffusion of Fe. The solidified structure at the interface consisted of crystalline α -Al and an amorphous metastable Al-Fe intermetallic compound similar to the observations in rapid solidification of Al-Fe alloys. The sub-nm scale characterization of the interface using atom probe tomography showed two distinct zones 1. A magnesium (5 at.%) and oxygen (15 at.%) rich (not detectable using energy dispersive spectroscopy) which was probably from the decomposition of the surface oxide film 2. The rapidly solidified reaction zone consisting of primary crystalline α -Al and an amorphous Al-Fe (15 at.%)-O (0.5 at.%)-Si (1.5 at.%). Based on these observations a mechanism for the bond formation is presented.
Screening for the metabolic side effects of antipsychotic medication: findings of a 6-year quality improvement programme in the UK

OBJECTIVES
To increase the frequency and quality of screening for the metabolic syndrome in people prescribed continuing antipsychotic medication.


DESIGN
An audit-based, quality improvement programme (QIP) with customised feedback to participating mental health services after each audit, including benchmarked data on their relative and absolute performance against an evidence-based practice standard and the provision of bespoke change interventions.


SETTING
Adult, assertive outreach, community psychiatric services in the UK.


PARTICIPANTS
6 audits were conducted between 2006 and 2012. 21 mental health Trusts participated in the baseline audit in 2006, submitting data on screening for 1966 patients, while 32 Trusts participated in the 2012 audit, submitting data on 1591 patients.


RESULTS
Over the 6 years of the programme, there was a statistically significant increase in the proportion of patients for whom measures for all 4 aspects of the metabolic syndrome had been documented in the clinical records in the previous year, from just over 1 in 10 patients in 2006 to just over 1 in 3 by 2012. The proportion of patients with no evidence of any screening fell from almost ½ to 1 in 7 patients over the same period.


CONCLUSIONS
The findings suggest that audit-based QIPs can help improve clinical practice in relation to physical healthcare screening. Nevertheless, they also reveal that only a minority of community psychiatric patients prescribed antipsychotic medication is screened for the metabolic syndrome in accordance with best practice recommendations, and therefore potentially remediable causes of poor physical health remain undetected and untreated.
A Hybrid Approach to Emotional Sentence Polarity and Intensity Classification

In this paper, the authors present a new approach to sentence level sentiment analysis. The aim is to determine whether a sentence expresses a positive, negative or neutral sentiment, as well as its intensity. The method performs WSD over the words in the sentence in order to work with concepts rather than terms, and makes use of the knowledge in an affective lexicon to label these concepts with emotional categories. It also deals with the effect of negations and quantifiers on polarity and intensity analysis. An extensive evaluation in two different domains is performed in order to determine how the method behaves in 2classes (positive and negative), 3-classes (positive, negative and neutral) and 5-classes (strongly negative, weakly negative, neutral, weakly positive and strongly positive) classification tasks. The results obtained compare favorably with those achieved by other systems addressing similar evaluations.
Unroofing and marsupialization vs. rhomboid excision and Limberg flap in pilonidal disease: a prospective, randomized, clinical trial.

BACKGROUND
The aim of the study was to compare clinical outcomes and quality of life in patients undergoing surgery for pilonidal disease with unroofing and marsupialization (UM) or rhomboid excision and Limberg flap (RELP) procedures.


METHODS
One hundred forty consecutive patients with pilonidal sinus were randomly assigned to receive either UM or RELP procedures. A specifically designed questionnaire was administered at three months to assess time from the operation until the patient was able to walk, return to daily activities, or sit without pain, time to return to work or school, and time to healing. Postoperative pain was assessed with a visual analog scale and the McGill Pain Questionnaire. Patients' quality of life was evaluated with the Cardiff Wound Impact Schedule (CWIS). Questionnaires were administered by a clinician blinded to treatment.


RESULTS
Compared with RELP, patients receiving UM had significantly shorter duration of operation and hospital stay, shorter time periods to walk, return to daily activities, or sit without pain and to return to work or school, and fewer complications. Time to final healing was significantly shorter and quality of life scores on the CWIS were higher in patients receiving RELP than in those receiving UM. Patients with UM had lower levels of pain one week after surgery.


CONCLUSION
The unroofing and marsupialization procedure provides more clinical benefits in the treatment of pilonidal disease than rhomboid excision and Limberg flap and should be considered the procedure of choice. However, it may be associated with more inconvenience in wound care and longer healing time than rhomboid excision and Lindberg flap.
Desmoglein-2-Integrin Beta-8 Interaction Regulates Actin Assembly in Endothelial Cells: Deregulation in Systemic Sclerosis

BACKGROUND
The inability of endothelial cells of patients affected by the diffuse form of Systemic sclerosis (SSc) to perform angiogenesis is a marker of the disease. We previously demonstrated that desmoglein-2 reduction is a major difference between (SSc)-microvascular endothelial cells (MVECs) and normal (N)-MVECs. Here we investigated the role of desmoglein-2 in human N-MVECs and SSc-MVECs angiogenesis.


METHODOLOGY/PRINCIPAL FINDINGS
Angiogenesis was studied by Matrigel invasion, capillary morphogenesis in vitro and Matrigel plug assay in vivo. Gene profiling was studied by Affymetrix technology and signal transduction by Western blotting. Colocalization was validated by immunoprecipitation and confocal microscopy. SiRNAs were used to validate the roles of specific molecules. We observed that desmoglein-2 co-localizes with integrin-beta8 in N-MVECs. This complex is required to signal through Rac, FAK, SMAD1/5 and MAP-kinases, promoting an angiogenic program. Inhibition of desmoglein-2 by DSG2-siRNA impaired actin stress fibres formation, capillary morphogenesis in vitro and angiogenesis in vivo. Transcriptome profiling after DSG2 inhibition revealed alterations of several genes involved in actin organization. siRNA inhibition of integrin-beta8 and RAC2 also resulted into capillary morphogenesis impairment in N-MVECs, due to reduced expression of the same actin-assembly genes that were down-regulated by DSG2 silencing. SSc-MVECs showed down-regulation of the same genes in DSG2-siRNA treated N-MVECs, suggesting that impairment of desmoglein-2/integrin-beta8 complex contributes to angiogenesis derangement in SSc. Transfection of DSG2 in SSc-MVEC partially restored their angiogenic properties in vitro.


CONCLUSIONS/SIGNIFICANCE
We have shown that impairment of actin assembly as a result of desmoglein-2/integrin-beta8 complex formation is a major factor contributing to angiogenesis deregulation in Systemic sclerosis.
Phylo-VISTA: interactive visualization of multiple DNA sequence alignments

MOTIVATION
The power of multi-sequence comparison for biological discovery is well established. The need for new capabilities to visualize and compare cross-species alignment data is intensified by the growing number of genomic sequence datasets being generated for an ever-increasing number of organisms. To be efficient these visualization algorithms must support the ability to accommodate consistently a wide range of evolutionary distances in a comparison framework based upon phylogenetic relationships.


RESULTS
We have developed Phylo-VISTA, an interactive tool for analyzing multiple alignments by visualizing a similarity measure for multiple DNA sequences. The complexity of visual presentation is effectively organized using a framework based upon interspecies phylogenetic relationships. The phylogenetic organization supports rapid, user-guided interspecies comparison. To aid in navigation through large sequence datasets, Phylo-VISTA leverages concepts from VISTA that provide a user with the ability to select and view data at varying resolutions. The combination of multiresolution data visualization and analysis, combined with the phylogenetic framework for interspecies comparison, produces a highly flexible and powerful tool for visual data analysis of multiple sequence alignments.


AVAILABILITY
Phylo-VISTA is available at http://www-gsd.lbl.gov/phylovista. It requires an Internet browser with Java Plug-in 1.4.2 and it is integrated into the global alignment program LAGAN at http://lagan.stanford.edu
N-terminal pro-brain natriuretic peptide and risk of coronary artery lesions and resistance to intravenous immunoglobulin in Kawasaki disease.

OBJECTIVE
To determine whether the serum N-terminal pro-brain natriuretic peptide (NT-proBNP) can be a useful marker not only to identify the patients with Kawasaki disease (KD) who are at a higher risk of developing coronary artery lesions (CAL), and predict resistance to intravenous immunoglobulin (IVIG).


STUDY DESIGN
We enrolled 80 patients with the acute phase of KD at a single center. The demographic, clinical, and laboratory data were prospectively collected.


RESULTS
Nineteen of the 80 patients developed CAL, despite IVIG administration. They had a significantly higher serum NT-proBNP level in comparison with the patients without CAL. The NT-proBNP cut-off value of 1300 pg/mL yielded a sensitivity of 95% and a specificity of 85% for predicting CAL. However, 17 of the 80 patients were IVIG non-responders. They also had a significantly higher serum NT-proBNP level in comparison with the IVIG responders. The NT-proBNP cut-off value of 800 pg/mL yielded a sensitivity of 71% and a specificity of 62% for predicting IVIG non-responders.


CONCLUSIONS
The serum NT-proBNP level is increased in children with KD with CAL and IVIG resistance. It may be useful to predict CAL and IVIG resistance in KD.
Automatic extraction of relations between medical concepts in clinical texts

OBJECTIVE
A supervised machine learning approach to discover relations between medical problems, treatments, and tests mentioned in electronic medical records.


MATERIALS AND METHODS
A single support vector machine classifier was used to identify relations between concepts and to assign their semantic type. Several resources such as Wikipedia, WordNet, General Inquirer, and a relation similarity metric inform the classifier.


RESULTS
The techniques reported in this paper were evaluated in the 2010 i2b2 Challenge and obtained the highest F1 score for the relation extraction task. When gold standard data for concepts and assertions were available, F1 was 73.7, precision was 72.0, and recall was 75.3. F1 is defined as 2*Precision*Recall/(Precision+Recall). Alternatively, when concepts and assertions were discovered automatically, F1 was 48.4, precision was 57.6, and recall was 41.7.


DISCUSSION
Although a rich set of features was developed for the classifiers presented in this paper, little knowledge mining was performed from medical ontologies such as those found in UMLS. Future studies should incorporate features extracted from such knowledge sources, which we expect to further improve the results. Moreover, each relation discovery was treated independently. Joint classification of relations may further improve the quality of results. Also, joint learning of the discovery of concepts, assertions, and relations may also improve the results of automatic relation extraction.


CONCLUSION
Lexical and contextual features proved to be very important in relation extraction from medical texts. When they are not available to the classifier, the F1 score decreases by 3.7%. In addition, features based on similarity contribute to a decrease of 1.1% when they are not available.
Comparison of VMAT and IMRT strategies for cervical cancer patients using automated planning.

BACKGROUND AND PURPOSE
In a published study on cervical cancer, 5-beam IMRT was inferior to single arc VMAT. Here we compare 9, 12, and 20 beam IMRT with single and dual arc VMAT.


MATERIAL AND METHODS
For each of 10 patients, automated plan generation with the in-house Erasmus-iCycle optimizer was used to assist an expert planner in generating the five plans with the clinical TPS.


RESULTS
For each patient, all plans were clinically acceptable with a high and similar PTV coverage. OAR sparing increased when going from 9 to 12 to 20 IMRT beams, and from single to dual arc VMAT. For all patients, 12 and 20 beam IMRT were superior to single and dual arc VMAT, with substantial variations in gain among the study patients. As expected, delivery of VMAT plans was significantly faster than delivery of IMRT plans.


CONCLUSIONS
Often reported increased plan quality for VMAT compared to IMRT has not been observed for cervical cancer. Twenty and 12 beam IMRT plans had a higher quality than single and dual arc VMAT. For individual patients, the optimal delivery technique depends on a complex trade-off between plan quality and treatment time that may change with introduction of faster delivery systems.