bluuebunny/crossref_metadata_2025_split huggingface dataset:
Bangladesh farmers push for temporary flooding to correct Dutch polder failure
Authors: Hanlon Joseph 
Published: January 2020

AbstractControlling floods and raising rice production in Bangladesh have been the centres of struggle for nearly a century—between North and South, and between engineering solutions and local knowledge. Decades of disastrous construction of dikes and polders led first to local protests, including cutting dikes, and then to a structured local solution known as tidal river management, which won the support of Bangladeshi scientists and academics. Suddenly, the global North has noticed and is rushing to catch up—asking what local farmers knew and their hydraulic engineers did not, while trying to maintain the dominance of aid industry engineers and technicians in Bangladesh.
Targeted cerebrospinal fluid analysis for inborn errors of metabolism on an LC‐MS/MS analysis platform
Authors: Klinke Glynis , Richter Sylvia , Monostori Péter , Schmidt‐Mader Brigitte , García‐Cazorla Angels , Artuch Rafael , Christ Stine , Opladen Thomas , Hoffmann Georg F. , Blau Nenad , Okun Jürgen G. 
Published: January 2020

AbstractBackgroundLaboratory investigations of cerebrospinal fluid (CSF) are essential when suspecting an inborn error of metabolism (IEM) involving neurological features. Available tests are currently performed on different analytical platforms, requiring a large sample volume and long turnaround time, which often delays timely diagnosis. Therefore, it would be preferable to have an “one‐instrument” targeted multi‐metabolite approach.MethodA liquid chromatography‐tandem mass spectrometry (LC‐MS/MS) platform, based on two different methods for analysing 38 metabolites using positive and negative electrospray ionisation modes, was established. To allow for platform extension, both methods were designed to use the same CSF sample preparation procedure and to be run on the same separation column (ACE C18‐PFP).ResultsAssessment of the LC‐MS/MS platform methods was first made by analytical validation, followed by the establishment of literature‐based CSF cut‐off values and reference ranges, and by the measurement of available samples obtained from patients with confirmed diagnoses of aromatic l‐amino acid decarboxylase deficiency, guanidinoacetate methyltransferase deficiency, ornithine aminotransferase deficiency, cerebral folate deficiency and methylenetetrahydrofolate reductase deficiency.ConclusionAn extendable targeted LC‐MS/MS platform was developed for the analysis of multiple metabolites in CSF, thereby distinguishing samples from patients with IEM from non‐IEM samples. Reference concentrations for several biomarkers in CSF are provided for the first time. By measurement on a single analytical platform, less sample volume is required (200 μL), diagnostic results are obtained faster, and preanalytical issues are reduced.SynopsisLC‐MS/MS platform for CSF analysis consisting of two differentially designed methods.
Top 10 Reviewer Critiques of Radiology Artificial Intelligence (AI) Articles: Qualitative Thematic Analysis of Reviewer Critiques of Machine Learning/Deep Learning Manuscripts Submitted to JMRI
Authors: Gregory Jules , Welliver Sara , Chong Jaron 
Published: January 2020

BackgroundClassical machine learning (ML) and deep learning (DL) articles have rapidly captured the attention of the radiology research community and comprise an increasing proportion of articles submitted to JMRI, of variable reporting and methodological quality.PurposeTo identify the most frequent reviewer critiques of classical ML and DL articles submitted to JMRI.Study TypeQualitative thematic analysis.PopulationIn all, 1396 manuscript journal articles submitted to JMRI for consideration in 2018, with thematic analysis performed of reviewer critiques of 38 artificial intelligence (AI) articles, comprised of 24 ML and 14 DL articles, from January 9, 2018 to June 2, 2018.Field Strength/SequenceN/A.AssessmentAfter identifying and sampling ML and DL articles, and collecting all reviews, qualitative thematic analysis was performed to identify major and minor themes of reviewer critiques.Statistical TestsDescriptive statistics provided of article characteristics, and thematic review of major and minor themes.ResultsThirty‐eight articles were sampled for thematic review: 24 (63.2%) focused on classical ML and 14 (36.8%) on DL. The overall acceptance rate of classical ML/DL articles was 28.9%, similar to the overall 2017–2019 acceptance rate of 23.1–28.1%. These articles resulted in 72 reviews analyzed, yielding a total 713 critiques that underwent formal thematic analysis consensus encoding. Ten major themes of critiques were identified, with 1‐Lack of Information as the most frequent, comprising 268 (37.6%) of all critiques. Frequent minor themes of critiques concerning ML/DL‐specific recommendations included performing basic clinical statistics such as to ensure similarity of training and test groups (N = 26), emphasizing strong clinical Gold Standards for the basis of training labels (N = 19), and ensuring strong radiological relevance of the topic and task performed (N = 16).Data ConclusionStandardized reporting of ML and DL methods could help address nearly one‐third of all reviewer critiques made.Level of Evidence: 4Technical Efficacy Stage: 1J. Magn. Reson. Imaging 2020;52:248–254.
Prevalence and genotype distribution of human papillomavirus in women with cervical cancer or cervical intraepithelial neoplasia in Henan province, central China
Authors: Chen Guanghui , Zheng Peiming , Gao Lan , Zhao Jing , Wang Ying , Qin Wangsen 
Published: January 2020

AbstractTo evaluate the prevalence of human papillomavirus (HPV) infection and its genotype among women with cervical lesions in Henan Province, central China. A total of 1317     cervical scrapes from patients with cervical intraepithelial neoplasia 1 (CIN1) (n = 91), CIN2/3 (n = 466), and cervical cancer (CC; n = 760) were collected from 2013 to 2018, and then tested for HPV genotypes using polymerase chain reaction followed by flow‐through hybridization assay. The prevalence of HPV was 62.64% for patients with CIN1, 86.91% for patients with CIN2/3%, and 89.21% for patients with CC. In total, the HPV prevalence was 86.56%, and the most common HPV type was HPV16 (58.77%) followed by HPV58 (10.33%), 18 (7.67%), 52 (6.61%), and 33 (5.54%). In this study, the high‐risk HPV cumulative attribution rate of nine‐valent vaccine coverage was markedly higher than that of bivalent or quadrivalent vaccine coverage in each histopathological category or overall (P < .001). Single HPV infection was the main infection category in each histopathological diagnosis, and the total infection rate was 65.83% (867/1317; P < .001). The prevalence of HPV16 or single HPV infection increased with the severity of cervical lesions (P < .001). HPV16, 58, 18, 52, and 33 may be predominant high‐risk factors for cervical lesions in Henan Province. The nine‐valent prophylactic HPV vaccine is more effective than a bivalent or quadrivalent vaccine for protecting women from CC in the region.
Improving the dynamical seasonal prediction of western Pacific warm pool sea surface temperatures using a physical–empirical model
Authors: Chen Ping , Sun Bo 
Published: January 2020

AbstractThe western Pacific warm pool (WPWP) has a profound impact on the global climate. In this study, the forecast skill of ENSEMBLES model for predicting the WPWP sea surface temperature (SST) for the period 1960–2006 is evaluated, where a WPWP index (WPWPI) is defined to represent the interannual variability of WPWP SST. The result indicates that the ENSEMBLES exhibit a poor skill in predicting the WPWPI during January–April (2‐ to 5‐month forecasts starting on November 1). To improve the ENSEMBLES‐predicted WPWP SSTs during January–April, a physical–empirical (PE) model is developed based on two predictors, using the year‐to‐year increment method and the linear regression method. The two predictors include the ENSEMBLES‐predicted sea level pressure during January and the observed northern tropical Atlantic SSTs during the preceding August. The mechanisms associated with the two predictors are illuminated. The 1‐year‐out cross‐validation and the independent hindcast indicate that this PE model may notably improve the WPWPI prediction of ENSEMBLES, with a correlation coefficient (CC) above 0.6 between the PE‐model‐predicted WPWPI and the observed WPWPI during January–April. The physical mechanisms expounded in this study and the PE model utilized in this study can be considered to improve the prediction of WPWP SST of numerical models in the future.
Decadal climatology of the spatial and vertical distributions of tropospheric aerosol over the Arabian Sea based on satellite observations
Authors: Tandule Chakradhar Rao , Kalluri Raja Obul Reddy , Gugamsetty Balakrishnaiah , Kotalo Rama Gopal , Thotli Lokeswara Reddy , Rajuru Ramakrishna Reddy , Vaddin Shalini 
Published: January 2020

AbstractThe climatology of aerosol optical properties is retrieved and analysed for the period from June 2006 to November 2017 over the Arabian Sea from the Cloud‐Aerosol Lidar with Orthogonal Polarization (CALIOP) onboard Cloud‐Aerosol Lidar and Infrared Pathfinder Satellite Observations (CALIPSO) and Moderate Resolution Imaging Spectroradiometer (MODIS) onboard Aqua satellite. Strong seasonality and latitudinal gradients in the columnar aerosol optical depth, dust aerosol optical depth (DOD) over the Arabian Sea are observed. Most of the aerosols over the North Arabian Sea (NAS) and the Central Arabian Sea are confined to the surface (i.e., 0–3 km). However, the seasonal mean high extinction coefficient is found during summer over the Arabian Sea. The high vertical extent of aerosols (with higher extinction coefficient) at altitudes >4 km emphasizes the continental aerosol effluence from the southwestern peninsular Indian subcontinent during winter, spring and autumn seasons. The contribution of dust extinction coefficient to the total columnar DOD has been observed to be high over NAS (>35%) at 0–1 km altitude bin during all the seasons and it is lowest (<15%) at the altitude range of 5–6 km. Dust fraction (DF) shows a clear latitudinal variation with a peak over NAS and diminishes towards SAS. The highest DF is observed over NAS during spring (82%) even though the dust extinction coefficient attained maximum during summer (0.81 ± 0.07 km−1). This is due to the strong westerly winds over NAS from the coast of Oman during spring. A positive difference between DF derived from MODIS and CALIPSO is noticed, and it might be due to the limitation of MODIS in discriminating the aerosol and the cloud from its passive sensor reliable than an active sensor like lidar in CALIPSO. The outcomes of the present study will serve as a reliable source for future studies of dust‐regional scale climate interactions over the Arabian Sea.
Changes in the frequency of hot, humid days and nights in the Mississippi River Basin
Authors: Tavakol Ameneh , Rahmani Vahid , Harrington John 
Published: January 2020

AbstractThe severe impacts of climate change on human health will rise from the co‐occurrence of extreme humid and hot conditions. In this study, six indices associated with high humidity, maximum and minimum daytime and nighttime temperature and the heat index (HI) values were analysed to assess temporal changes in hot, humid conditions in the Mississippi River Basin (MRB), USA, for the period 1948–2017. The frequencies of extreme humid days and nights have significant upward trends over 97 and 93% of MRB, respectively. Trends of day‐time HI were mainly upward (63%), except for eastern regions of MRB. More of the upward trends for the frequency of hot nights were significant than the trends for hot days either for the entire period (72% of MRB for hot nights and 4% for hot days) or after a significant change‐point (26% of MRB for hot nights and 20% for hot days). Except for minimum HI, other indices including extreme maximum and minimum temperature and specific humidity as well as maximum HI had an upward trend after the 1980s and 1990s for the majority of grid‐cells. Central and southern areas of the MRB were identified as regions most at risk for an extreme HI value during both days and nights.
Evaluation of a Torn Achilles Tendon After Surgical Repair
Authors: Ciloglu Osman , Görgülü Fatma Feride 
Published: January 2020

ObjectivesThe aim of this study was to evaluate the healing process of a torn Achilles tendon after surgical repair using ultrasound elastography.MethodsThis study was set in a prospective case‐control analytic design. Patients who underwent surgical repair of complete rupture of the Achilles tendon were enrolled, together with a control group. The data for the patient group were assessed at 12, 24, and 48 weeks postoperatively. All patients were evaluated by the American Orthopedic Foot and Ankle Scale. Values for the thickness, the cross‐sectional area, strain elastography, and shear wave elastography (SWE) were compared on a high‐resolution Doppler ultrasound system.ResultsThe percentage of the red‐to‐yellow code was the highest (57.7%) at the 12th‐week evaluation, and the percentage of the green code was the highest at the 24th‐week (53.8%) and 48th‐week (69.2%) evaluations. With respect to color codes on the nonruptured side, the percentage of green increased and the percentage of blue decreased over time (P = .002). The SWE values increased over time on the ruptured side and decreased on the nonruptured side. There was a positive correlation (moderate) between the American Orthopedic Foot and Ankle Scale and SWE values at the 24th‐ and 48th‐week evaluations.ConclusionsThe results of this study demonstrated that the Achilles tendon seems to become stiffer with the healing process. Ultrasound elastography can provide structural information about the healing process of the Achilles tendon after surgical repair and can quantify findings for follow‐up.
The Canadian Medical Student Ultrasound Curriculum
Authors: Ma Irene W. Y. , Steinmetz Peter , Weerdenburg Kirstin , Woo Michael Y. , Olszynski Paul , Heslop Claire L. , Miller Stephen , Sheppard Gillian , Daniels Vijay , Desy Janeve , Valois Maxime , Devine Luke , Curtis Heather , Romano Michael J. , Martel Patrick , Jelic Tomislav , Topping Claude , Thompson Drew , Power Barbara , Profetto Jason , Tonseth Pete 
Published: January 2020

ObjectivesThis study sought to establish by expert review a consensus‐based, focused ultrasound curriculum, consisting of a foundational set of focused ultrasound skills that all Canadian medical students would be expected to attain at the end of the medical school program.MethodsAn expert panel of 21 point‐of‐care ultrasound and educational leaders representing 15 of 17 (88%) Canadian medical schools was formed and participated in a modified Delphi consensus method. Experts anonymously rated 195 curricular elements on their appropriateness to include in a medical school curriculum using a 5‐point Likert scale. The group defined consensus as 70% or more experts agreeing to include or exclude an element. We determined a priori that no more than 3 rounds of voting would be performed.ResultsOf the 195 curricular elements considered in the first round of voting, the group reached consensus to include 78 and exclude 24. In the second round, consensus was reached to include 4 and exclude 63 elements. In our final round, with 1 additional item added to the survey, the group reached consensus to include an additional 3 and exclude 8 elements. A total of 85 curricular elements reached consensus to be included, with 95 to be excluded. Sixteen elements did not reach consensus to be included or excluded.ConclusionsBy expert opinion‐based consensus, the Canadian Ultrasound Consensus for Undergraduate Medical Education Group recommends that 85 curricular elements be considered for inclusion for teaching in the Canadian medical school focused ultrasound curricula.
Voice and Swallowing Outcomes Following Airway Reconstruction in Adults: A Systematic Review
Authors: Clunie Gemma M. , Roe Justin W. G. , Alexander Caroline , Sandhu Gurpreet , McGregor Alison 
Published: January 2020

ObjectivesLaryngotracheal stenosis is a rare condition characterized by upper airway narrowing. Reconstructive surgical treatment aims to manage the area of stenosis to improve dyspnea and can impact voice and swallowing function. This article critically evaluates the literature about voice and swallowing outcomes in adults with laryngotracheal stenosis who undergo reconstructive surgery.Study DesignSystematic review.MethodsSix databases were searched for articles referring to voice and swallowing outcome measures following reconstruction procedures in adults with laryngotracheal stenosis. Screening was completed using predefined inclusion/exclusion criteria.ResultsA total of 143 abstracts were reviewed, with 67 articles selected for full‐text review. Twenty studies met the inclusion criteria. Data extraction was completed with the Strengthening Reporting of Observational Studies in Epidemiology checklist with Oxford Centre for Evidence‐Based Medicine Level of Evidence used to indicate quality. Risk of bias was assessed using the Risk of Bias Assessment Tool for Non‐Randomized Studies. All studies scored a high risk of bias in at least one of the domains. Selection and timing of outcome measures was heterogenous, and there was limited information provided about rationale or reliability.ConclusionsThe literature acknowledges the importance of voice and swallowing outcomes following airway reconstruction. Studies show correlation between reconstructive surgery and deterioration in vocal function; there are no consistent data about swallowing outcomes. The lack of a core outcome measures set for adults with laryngotracheal stenosis limits the findings of this review. Further research is needed to establish clear criteria for robust and clinically relevant outcome measurement. Laryngoscope, 131:146–157, 2021
The journal publishing services agreement: A guide for societies
Authors: Clarke Michael T. 
Published: January 2020

Key points
Scholarly publishing is unusual because of the substantial involvement of non‐profit organizations and the way in which they work with commercial publishers.
Publishing services agreements (PSAs) may provide predictable revenues, access to transformative agreements, and wider distribution.
The largest disadvantage of PSAs is publisher lock‐in, where revenues derived from publisher packages are not portable.
Deciding to enter a publisher services agreement should not be taken lightly and must be carefully aligned with the society's value and strategy.
Publishing at the British Institute of Radiology: A case study
Authors: Anderton Sophia 
Published: January 2020

Key points
The British Institute of Radiology (BIR) receives more than 50% of its income from its publishing programme, vital to support its educational, outreach, and advocacy work.
Radiology has been very slow to adopt open access publishing, mostly because of the paucity of funding in the field – representing only c.5% of articles in the BIR flagship journal.

Small independent society publishers can be more flexible than larger publishers but rely on networks of support from associations and other societies and reliable suppliers.
Society publishers have a ready‐made community of readers and authors who value the work of the organization and its publications.
A report on the future of independent and scholarly publishing webinar by the Scholarly Kitchen
Authors: Jones Phill 
Published: January 2020

Key points
The open access movement continues to gain pace, resulting in increasing regulatory requirements that constrain business models.
Plan S itself may only have a modest immediate effect on industry‐wide sustainability but is the clearest indication of the ‘direction of travel’ for our industry yet.
Recent negotiations between publishers and consortia represent a ‘bigger deal’ and may therefore lead to even greater economic power for large commercial publishers.
Societies have a greater role than merely allowing researchers to get credit for and disseminate their work.
A one‐size‐fits‐all model of open access may threaten the sustainability of other community services managed by learned societies.
Do not panic about Plan S! Look to the needs of your community and offer a balanced portfolio of publications and services.
Plan S, self‐publishing, and addressing unreasonable risks of society publishing
Authors: Vuong Quan‐Hoang 
Published: January 2020

Key points
Societies face increasing pressure to contain costs and retain revenues, which are threatened by open access mandates.
Funders and other science publishing campaigns need to recognize the value of learned societies and work with them to sustain the production of quality knowledge.
Self‐publishing via preprint servers may threaten the quality of academic research.
Societies can reinforce their value proposition through a model of academic entrepreneurship, including research activities, media engagement, and consultancy.
GeoScienceWorld: A case study in non‐profit collaboration to drive sustainability and growth for independent societies
Authors: Segers Marc , Rubinstein Brett , FitzGerald Laura , Vance Alix 
Published: January 2020

Key points
GeoScienceWorld provides an independent society‐driven collaborative publishing model that provides the benefits of scale to societies.
A mix of society oversight and business independence allows for decisions and strategies that balance mission with commerce.
Being flexible and adaptive is crucial to ensure business sustainability and continued alignment with society objectives.
Programme expansion is necessary to meet changing needs but needs to be mindful of existing in‐house and outsourced resources.
Collaborative programmes need to leverage the collective strength and expertise of partners alongside capable, agile, and entrepreneurial staff.
Long‐term trends and resilience of seagrass metabolism: A decadal aquatic eddy covariance study
Authors: Berger Amelie C. , Berg Peter , McGlathery Karen J. , Delgard Marie Lise 
Published: January 2020

AbstractSeagrass meadows are valued for their ecosystem services, including their role in mitigating anthropogenic CO2 emissions through ‘blue carbon’ sequestration and storage. This study quantifies the dynamics of whole ecosystem metabolism on daily to interannual timescales for an eelgrass (Zostera marina) meadow using in situ benthic O2 flux measurements by aquatic eddy covariance over a period of 11 yr. The measurements were part of the Virginia Coast Reserve Long‐Term Ecological Research study, and covered a relatively stable period of seagrass ecosystem metabolism 6–13 yr after restoration by seeding (2007–2014), a die‐off event likely related to persistently high temperatures during peak growing season in 2015, and a partial recovery from 2016 to 2018. This unique sequence provides an unprecedented opportunity to study seagrass resilience to temperature stress. With this extensive data set covering 115 full diel cycles, we constructed an average annual oxygen budget that indicated the meadow was in metabolic balance when averaged over the entire period, with gross primary production and respiration equal to 95 and −94 mmol O2 m−2 d−1, respectively. On an interannual scale, there was a shift in trophic status from balanced to net heterotrophy during the die‐off event in 2015, then to net autotrophy as the meadow recovered. The highly dynamic and variable nature of seagrass metabolism captured by our aquatic eddy covariance data emphasizes the importance of using frequent measurements throughout the year to correctly estimate trophic status of seagrass meadows.