bluuebunny/crossref_metadata_2025_split huggingface dataset:
Validation of a New Web Application for Identification of Fungi by Use of Matrix-Assisted Laser Desorption Ionization–Time of Flight Mass Spectrometry
Authors: Normand A. C. , Becker P. , Gabriel F. , Cassagne C. , Accoceberry I. , Gari-Toussaint M. , Hasseine L. , De Geyter D. , Pierard D. , Surmont I. , Djenad F. , Donnadieu J. L. , Piarroux M. , Ranque S. , Hendrickx M. , Piarroux R. 
Published: June 2017

ABSTRACT
Matrix-assisted laser desorption ionization–time of flight (MALDI-TOF) mass spectrometry has emerged as a reliable technique to identify molds involved in human diseases, including dermatophytes, provided that exhaustive reference databases are available. This study assessed an online identification application based on original algorithms and an extensive in-house reference database comprising 11,851 spectra (938 fungal species and 246 fungal genera). Validation criteria were established using an initial panel of 422 molds, including dermatophytes, previously identified via DNA sequencing (126 species). The application was further assessed using a separate panel of 501 cultured clinical isolates (88 mold taxa including dermatophytes) derived from five hospital laboratories. A total of 438 (87.35%) isolates were correctly identified at the species level, while 26 (5.22%) were assigned to the correct genus but the wrong species and 37 (7.43%) were not identified, since the defined threshold of 20 was not reached. The use of the Bruker Daltonics database included in the MALDI Biotyper software resulted in a much higher rate of unidentified isolates (39.76 and 74.30% using the score thresholds 1.7 and 2.0, respectively). Moreover, the identification delay of the online application remained compatible with real-time online queries (0.15 s per spectrum), and the application was faster than identifications using the MALDI Biotyper software. This is the first study to assess an online identification system based on MALDI-TOF spectrum analysis. We have successfully applied this approach to identify molds, including dermatophytes, for which diversity is insufficiently represented in commercial databases. This free-access application is available to medical mycologists to improve fungal identification.
Structural Mimicry of the Dengue Virus Envelope Glycoprotein Revealed by the Crystallographic Study of an Idiotype–Anti-idiotype Fab Complex
Authors: Wong Yee Hwa , Goh Boon Chong , Lim She Yah , Teo En Wei , Lim Angeline P. C. , Dedon Pete C. , Hanson Brendon J. , MacAry Paul A. , Lescar Julien 
Published: June 2017

ABSTRACT
A detailed understanding of the fine specificity of serotype-specific human antibodies is vital for the development and evaluation of new vaccines for pathogenic flaviviruses such as dengue virus (DENV) and Zika virus. In this study, we thoroughly characterize the structural footprint of an anti-idiotype antibody (E1) specific for a potent, fully human DENV serotype 1-specific antibody, termed HM14c10, derived from a recovered patient. The crystal structure at a resolution of 2.5 Å of a complex between the Fab fragments of E1 and HM14c10 provides the first detailed molecular comparison of an anti-idiotype paratope specific for a human antibody with its analogous epitope, a discontinuous quaternary structure located at the surface of the viral particle that spans adjacent envelope (E) proteins. This comparison reveals that the footprints left by E1 and E on HM14c10 largely overlap, explaining why the formation of binary complexes is mutually exclusive. Structural mimicry of the DENV E epitope by the E1 combining site is achieved via the formation of numerous interactions with heavy chain complementarity domain regions (CDRs) of HM14c10, while fewer interactions are observed with its light chain than for the E protein. We show that E1 can be utilized to detect HM14c10-like antibodies in sera from patients who recovered from DENV-1, infection suggesting that this is a public (common) idiotype. These data demonstrate the utility of employing an anti-idiotype antibody to monitor a patient's specific immune responses and suggest routes for the improvement of E “mimicry” by E1 by increasing its recognition of the Fab HM14c10 light chain CDRs.

IMPORTANCE
A chimeric yellow fever-dengue live-attenuated tetravalent vaccine is now being marketed. Dengue remains a significant public health problem, because protection conferred by this vaccine against the four circulating serotypes is uneven. Reliable tools must be developed to measure the immune responses of individuals exposed to DENV either via viral infection or through vaccination. Anti-idiotypic antibodies provide precision tools for analyzing the pharmacokinetics of antibodies in an immune response and also for measuring the amount of circulating anti-infective therapeutic antibodies. Here, we characterize how an anti-idiotypic antibody (E1) binds antibody HM14c10, which potently neutralizes DENV serotype 1. We report the crystal structure at a resolution of 2.5 Å of a complex between the Fab fragments of E1 and HM14c10 and provide the first detailed molecular comparison between the anti-idiotype surface and its analogous epitope located at the surface of the dengue virus particle.
Detecting optic nerve head swelling on ultrasound and optical coherence tomography in children and young people: an observational study
Authors: Dahlmann-Noor Annegret Hella , Adams Gillian W , Daniel Moritz Claudius , Davis Alison , Hancox Joanne , Hingorani Melanie , Ibanez Patricia , McPhee Becky , Patel Himanshu , Restori Marie , Roberts Clare , Theodorou Maria , Acheson James 
Published: June 2017

BackgroundFollowing high-profile cases, referrals for evaluation of ‘suspicious optic discs’ to eye clinics in the UK have sharply increased, asking ophthalmologists to reliably distinguish between true and pseudopapilloedema. Optic nerve sheath dilatation (ONSD) on ocular ultrasound (US) is considered a reliable sign of true papilloedema, but this test is not widely available. Recently, anterior bowing of Bruch’s membrane (BM) and increased retinal nerve fibre layer thickness on optical coherence tomography (OCT) have emerged as indicators of intracranial hypertension, and OCT is widely available. We aimed to evaluate safety and efficacy of the diagnostic workup in our service, with particular emphasis of diagnostic reliability of US and OCT.MethodsRetrospective service evaluation/cohort study of children and young people younger than 16 years investigated for ‘suspicious discs’ over a 7-month period in 2016 at a single eye care provider in London, UK. 61 children and young people underwent clinical assessment, US scan and OCT.ResultsOf 61 cases, 3 had intracranial pathology. At presentation, only one had ONSD on US and anterior bowing of BM on OCT. Increased nerve fibre layer thickness in at least one of three relevant sectors was observed in two cases. All three cases of intracranial pathology, however, had significant points in their presenting or medical history.ConclusionOphthalmologists and optometrists must not rely on funduscopy and ocular imaging when assessing a child for possible intracranial disease; history and basic neurological assessment are critical in the diagnostic workup.
Interventions for preventing mother-to-child HIV transmission: protocol of an overview of systematic reviews
Authors: Wariki Windy Mariane Virenia , Ota Erika , Mori Rintaro , Wiysonge Charles S , Horvath Hacsi , Read Jennifer S 
Published: June 2017

IntroductionVarious interventions to prevent mother-to-child-transmission (MTCT) of HIV have been investigated and implemented. A number of systematic reviews assessing the efficacy of interventions for the prevention of MTCT of HIV reported antiretroviral prophylaxis, caesarean section before labour and before ruptured membranes, and complete avoidance of breastfeeding were efficacious for preventing MTCT of HIV. Recent WHO guidelines recommend lifelong antiretroviral therapy for all pregnant women for treatment of the woman’s own HIV infection and for prevention of MTCT of HIV. Therefore, the objective of this overview is to evaluate the currently available systematic reviews of interventions for preventing MTCT of HIV, and to identify the current best evidence-based interventions for reducing the risk of MTCT of HIV.Methods and analysisWe will include only peer-reviewed systematic reviews of randomised or quasi-randomised controlled trials assessing the effects of interventions for preventing MTCT of HIV that target both HIV-infected women and children aged 2 years and younger born to HIV-infected women. We will search the Cochrane Database of Systematic Reviews, the Database of Abstracts of Reviews of Effectiveness, Ovid MEDLINE and EMBASE. We will assess review eligibility, the methodological quality of included systematic reviews using A Measurement Tool to Assess The Systematic Reviews and will extract data, comparing our results and resolving discrepancies by consensus. Finally, we will independently assess the certainty of the evidence using Grades of Recommendation, Assessment, Development and Evaluation.Ethics and disseminationEthics approval is not required. We will publish the results in a peer-reviewed journal and present at conferences, which will inform future research and will be useful for healthcare managers, administrators and policymakers to guide resource allocation decisions and optimisation of interventions to prevent the MTCT of HIV.
Elevation of TP53 Autoantibody Before CA125 in Preclinical Invasive Epithelial Ovarian Cancer
Authors: Yang Wei-Lei , Gentry-Maharaj Aleksandra , Simmons Archana , Ryan Andy , Fourkala Evangelia Ourania , Lu Zhen , Baggerly Keith A. , Zhao Yang , Lu Karen H. , Bowtell David , Jacobs Ian , Skates Steven J. , He Wei-Wu , Menon Usha , Bast Robert C. 
Published: June 2017

Abstract
Purpose: The TP53 tumor-suppressor gene is mutated in &gt;95% of high-grade serous ovarian cancers. Detecting an autologous antibody response to TP53 that might improve early detection.
Experimental Design: An immunoassay was developed to measure TP53 autoantibody in sera from 378 cases of invasive epithelial ovarian cancer and 944 age-matched healthy controls from the United States, Australia, and the United Kingdom. Serial preclinical samples from cases and controls were also assayed from the UK Collaborative Trial of Ovarian Cancer Screening (UKCTOCS).
Results: Using a cutoff value of 78 U/mL to achieve a specificity of 97.4%, TP53 autoantibody was elevated in 30% of 50 cases from MD Anderson, 21.3% of 108 cases from the Australian Ovarian Cancer Study, and 21% of 220 cases from the UKCTOCS. Among 164 cases with rising CA125 detected with the UKCTOCS risk of ovarian cancer algorithm (ROCA), 20.7% had elevated TP53 autoantibody. In cases missed by the ROCA, 16% of cases had elevated TP53 autoantibody. Of the 34 ovarian cancer cases detected with the ROCA, TP53 autoantibody titers were elevated 11.0 months before CA125. In the 9 cases missed by the ROCA, TP53 autoantibody was elevated 22.9 months before cancer diagnosis. Similar sensitivity was obtained using assays with specific mutant and wild-type TP53.
Conclusions: TP53 autoantibody levels provide a biomarker with clinically significant lead time over elevation of CA125 or an elevated ROCA value. Quantitative assessment of autoantibodies in combination with CA125 holds promise for earlier detection of invasive epithelial ovarian cancer. Clin Cancer Res; 23(19); 5912–22. ©2017 AACR.
Intuitive and Reliable Estimates of the Output Gap from a Beveridge-Nelson Filter
Authors: Kamber Güneş , Morley James , Wong Benjamin 
Published: June 2017

Abstract
The Beveridge-Nelson decomposition based on autoregressive models produces estimates of the output gap that are strongly at odds with widely held beliefs about transitory movements in economic activity. This is due to parameter estimates implying a high signal-to-noise ratio in terms of the variance of trend shocks as a fraction of the overall forecast error variance. When we impose a lower signal-to-noise ratio, the resulting Beveridge-Nelson filter produces a more intuitive estimate of the output gap that is large in amplitude and highly persistent, and it typically increases in expansions and decreases in recessions. Notably, our approach is also reliable in the sense of being subject to smaller revisions and predicting future output growth and inflation better than other trend-cycle decompositions that impose a low signal-to-noise ratio.
Benefits of Long Versus Short Thrombolysis Times for Acutely Thrombosed Hemodialysis Native Fistulas
Authors: Regus Susanne , Lang Werner , Heinz Marco , Uder Michael , Schmid Axel 
Published: June 2017

Introduction: Local thrombolysis with a time of exposure to recombinant tissue plasminogen activator of 15 to 150 minutes is commonly used to declot acutely thrombosed hemodialysis fistulas. The duration of thrombolysis for the restoration of arteriovenous blood flow remains controversial. The aim of this study was to investigate the outcomes of long thrombolysis treatment (LTT, 3 hours or more) and short thrombolysis treatment (STT, less than 3 hours) in our institution. Methods: We retrospectively analyzed 86 interventional declotting procedures (28 STT and 58 LTT) applied to 86 acutely thrombosed hemodialysis fistulas. The intervention time (IT) following thrombolysis (from the initial fistulography to the end of the angioplasty maneuvers), the time of day of the intervention (ie, during working hours vs off-hours), and the need for temporary catheter placement (TCP) were assessed. Success was defined as complete access recanalization, and major adverse events were defined as ischemia, bleeding, and access rupture. Results: The ITs were reduced after LTT (63.3 [9.3] minutes) compared to STT (106.7 [24.7], P = .01), but there was no difference in success rate (85.7% STT, 89.7% LTT, P = .722). While all (100%, 58/58) of the angioplasty maneuvers after LTT were performed during regular working hours, 75% (21/28) of those following STT were managed during off-hours ( P < .001). Despite the longer treatment, the need for TCP was not increased after LTT (10.7%) compared to STT (12.1%, P = .515), and the major complication rate was reduced (3.4% after LTT and 28.6% after STT, P = .004). Conclusion: Long thrombolysis treatment results in shorter and less complicated percutaneous stenosis treatments during regular working hours. Despite the LTT of up to 25 hours until access for dialysis was achieved, no increase in the risks of TCP or major adverse events were observed following LTT.
European employment policies
Authors: Weiss Manfred 
Published: June 2017

This article provides a critical analysis of the EU Employment Policies legal framework. The need to focus on both the quantitative and qualitative dimensions of labour is highlighted in the first part. The second part deals with the quantitative aspects, addressing the Employment chapter, State aid, and the freedom of movement for workers. The third part discusses the qualitative side – providing an overview on the EU labour law – and addresses the limitation of the EU’s legislative powers and the need for minimum labour standards. The conclusion underlines the difficulties to get further hard law and the soft law inadequacy.
The Location of Anterior Cruciate Ligament Tears: A Prevalence Study Using Magnetic Resonance Imaging
Authors: van der List Jelle P. , Mintz Douglas N. , DiFelice Gregory S. 
Published: June 2017

Background: Over the past decade, there has been a resurgence of interest in anterior cruciate ligament (ACL) preservation. Proximal and distal avulsion tears have been treated with arthroscopic primary repair, while augmented repair, remnant tensioning, primary repair with biological scaffold, and remnant preservation have been proposed for different types of midsubstance tears. Currently, the incidence of these different tear types is unknown. Purpose: To propose a magnetic resonance imaging (MRI) classification system for different tear types based on clinical relevance and to assess the distribution of these different ACL tear types. Study Design: Case series; Level of evidence, 4. Methods: A retrospective search in an institutional radiographic database was performed for patients who underwent knee MRI at our institution between June 2014 and June 2016. Patients younger than 18 years and those with reports of chronic tears, partial tears, multiligamentous injuries, were excluded. Tear types were graded as proximal avulsion (distal remnant length >90% of total ligament length, type I), proximal (75%-90%, type II), midsubstance (25%-75%, type III), distal (10%-25%, type IV), and distal avulsion (<10%, type V). An orthopaedic surgeon, a radiologist, and a research fellow graded the tear type on 30 MRIs to determine reliability, and the research fellow graded all MRIs. Inter- and intraobserver reliability were measured using kappa statistics. Results: A total of 353 patients (57% male; mean age, 37.1 years; range, 18.1-81.2 years) were included. Interobserver reliability was 0.670 (95% confidence interval, 0.505-0.836), and intraobserver reliability ranged from 0.741 to 0.934. Incidence of type I tears was 16%, type II tears 27%, type III tears 52%, type IV tears 1%, and type V tears 3% (2.5% with bony avulsion). Type I tears were more common in patients older than 35 years compared with those younger than 35 years (23% vs 8%; P < .001). Conclusion: This classification system was reliable in assessing tear location in acute ACL injuries. Type I tears were seen in 16%, type II in 27%, and type III in 52% of patients in our cohort. These data suggest that there may be greater potential application for ACL preservation techniques.
Intravitreal injections service: a patient experience evaluation
Authors: Hasan Hani , Flockhart Sarah , Qureshi Waseem , Khan Selina , Ahmed Shahina , Shah Nimish 
Published: June 2017

Introduction: This survey has been conducted following the introduction of nurse-led intravitreal injections clinics at the Great Western Hospital. A team of 5 nurses regularly carry out an average of 90 injections per week. Methods: A series of 169 consecutive injection patients have been offered the study questionnaire between 28 January 2016 and 28 February 2016; patients with no previous experience with a nurse injector were excluded. Results: 76.9% strongly agree that the nurse is more friendly and sensitive to their needs. Only 12.4% strongly agree that a doctor will be more suitable to deliver the injections. Seventy-five percent stated that they were very happy with the care, while 0.4% thought a nurse would be unsafe; 69.2% feel more comfortable asking questions when with a nurse injector. Anxiety and nervousness were found to be the main two symptoms experienced by patients around the time of injections (27.8% and 34.9%, respectively). Discussion: The questionnaire was designed based on the feedback from the local friends and family test. A clear majority of patients gave highly positive feedback about nurse injectors. Considering patients' individual needs at the time of injections, such as allergies or points that needs clarification, helps in overcoming some of the psychological complications of treatment.
The weight of the past: Trauma and testimony in Que bom te ver viva
Authors: Heise Tatiana 
Published: June 2017

Abstract
This article examines representations of trauma in Lúcia Murat’s Que bom te ver viva (How Nice to See You Alive, 1989), a semi-documentary focusing on the experiences of former political militants who, like the director herself, were arrested and tortured under Brazil’s military dictatorship. Despite having limited distribution at the time of release, the film has since gained status as one of the most significant representations of State-sanctioned violence during the 1960s and 1970s. It has received renewed attention more recently as Brazil enters a new period of reckoning with human rights crimes committed during the military regime. I first consider elements of trauma theory and their potential for better understanding the ways in which the film establishes connections between individual suffering and the wider socio-political realm. Essential to the film’s understanding of historical trauma are processes of ‘acting out’ and ‘working through’ which I explore along with the need, partially fulfilled in Que bom te ver viva, to create a witness to traumatic events. This is combined with an examination of stylistic strategies. I argue that the film’s flexible and unconventional aesthetics is a crucial means through which it can represent certain experiences associated with trauma and perform a radical re-envisioning of history.
Remembering objects in the essay film: Andrés di Tella as heir, archaeologist and collector
Authors: Furtado Gustavo Procopio 
Published: June 2017

Abstract
Although Andrés di Tella is among the leading documentary filmmakers in South America, his work has received scant attention in the Anglophone world. Di Tella’s essayistic films mix personal and intimate perspectives with public and historical concerns, crafting a tentative filmic voice that is articulated on the borders between the public and the private. In his subjective explorations of personal and collective pasts, di Tella calls on material objects to play a vital role. Subjective recollections are accompanied by the constitution of collections of objects, material items that are the remainders from and the keys to the past. Remembering is remembering with and through things and senses of self and identity are forged and questioned in dialogue with constellations of objects. This article examines the interaction between subjects and objects in di Tella’s work with special attention to Fotografías (Photographs, 2007) and Hachazos (Ax Blows, 2011).
Non-affirmative time-images in Nuri Bilge Ceylan’s Three Monkeys (2008) and the political aesthetics of New Turkish Cinema
Authors: Katsanis Vuslat D. 
Published: June 2017

Abstract
This article reads Nuri Bilge Ceylan’s award-winning 2008 feature, Three Monkeys, which marks a significant maturity in the political aesthetics developed in New Turkish Cinema over the past fifteen years. Drawing from Deleuze’s theory of the cinematic time-image, and situating the film within Turkey’s particularly turbulent political climate, I try to show how stillness, non-reciprocal sound, ambiguous plot time and extensive long takes in Three Monkeys showcase New Turkish Cinema’s potential to articulate political critique.
Dis/connection across the digital divide: Self(ish) narratives in LOL and Catfish
Authors: Christmas Amy 
Published: June 2017

Abstract
Joe Swanberg’s LOL (2006) and Henry Joost and Ariel Schulman’s Catfish (2010) contribute to a burgeoning wealth of films, across various genres from the science fictional to the factual, that offer documentation and discussion of our contemporary technocultural identities. While the Internet and the virtual spaces it supports have produced an entire generation of digital natives proficient in communication – as the characters in these two incisive films typify – our ability to forge meaningful connections across the digital divide is increasingly thrown into question. In a networked world, we are failing to achieve community, a failure that these films foreground as ontologically destabilizing. Through an analysis of the characters, themes and aesthetics of these works, this article argues that, despite the rich textual infrastructure that the virtual world upholds, our current narrative practices threaten to dilute and dislocate our sense of self.