bluuebunny/crossref_metadata_2025_split huggingface dataset:
Morphological Subtypes of Intracranial Internal Carotid Artery Arteriosclerosis and the Risk of Stroke
Authors: van den Beukel Tim C. , van der Toorn Janine E. , Vernooij Meike W. , Kavousi Maryam , Akyildiz Ali C. , de Jong Pim A. , van der Lugt Aad , Ikram M. Kamran , Bos Daniel 
Published: November 2021

Background:
Accumulating evidence highlights the existence of distinct morphological subtypes of intracranial carotid arteriosclerosis. So far, little is known on the prevalence of these subtypes and subsequent stroke risk in the general population. We determined the prevalence of morphological subtypes of intracranial arteriosclerosis and assessed the risk of stroke associated with these subtypes.

Methods:
Between 2003 and 2006, 2391 stroke-free participants (mean age 69.6, 51.7% women) from the population-based Rotterdam Study underwent noncontrast computed tomography to visualize calcification in the intracranial carotid arteries as a proxy for intracranial arteriosclerosis. Calcification morphology was evaluated according to a validated grading scale and categorized into intimal, internal elastic lamina (IEL), or mixed subtype. Follow-up for stroke was complete until January 1, 2016. We used multivariable Cox regression to assess associations of each subtype with incident stroke.

Results:
The prevalence of calcification was 82% of which 39% had the intimal subtype, 48% IEL subtype, and 13% a mixed subtype. During a median follow-up of 10.4 years, 155 participants had a stroke. All 3 subtypes were associated with a higher risk of stroke (adjusted hazard ratio [95% CI] for intimal: 2.11 [1.07–4.13], IEL: 2.66 [1.39–5.11], and mixed subtype 2.57 [1.18–5.61]). The association of the IEL subtype with stroke was strongest among older participants. The association of the intimal subtype with stroke was noticeably stronger in women than in men.

Conclusions:
Calcification of the IEL was the most prevalent subtype of intracranial arteriosclerosis. All 3 subtypes were associated with an increased risk of stroke, with noticeable age and sex-specific differences.
Identity-Based Patterns in Deep Convolutional Networks: Generative Adversarial Phonology and Reduplication
Authors: Beguš Gašper 
Published: November 2021

AbstractThis paper models unsupervised learning of an identity-based pattern (or copying) in speech called reduplication from raw continuous data with deep convolutional neural networks. We use the ciwGAN architecture (Beguš, 2021a) in which learning of meaningful representations in speech emerges from a requirement that the CNNs generate informative data. We propose a technique to wug-test CNNs trained on speech and, based on four generative tests, argue that the network learns to represent an identity-based pattern in its latent space. By manipulating only two categorical variables in the latent space, we can actively turn an unreduplicated form into a reduplicated form with no other substantial changes to the output in the majority of cases. We also argue that the network extends the identity-based pattern to unobserved data. Exploration of how meaningful representations of identity-based patterns emerge in CNNs and how the latent space variables outside of the training range correlate with identity-based patterns in the output has general implications for neural network interpretability.
The Role of the Maritime Continent SST Anomalies in Maintaining the Pacific–Japan Pattern on Decadal Time Scales
Authors: Xie Mingmei , Wang Chunzai , Chen Sheng 
Published: November 2021

Abstract
The decadal Pacific–Japan (PJ) pattern, the dominant decadal mode of summer vorticity anomaly over East Asia, is characterized as a meridionally arranged wave pattern with one anomalous cyclone located over Taiwan, and two anomalous anticyclones around the South China Sea (SCS) and the Bohai Sea. This pattern can cause wetter and colder conditions in Southeast China and dryer and warmer conditions in North China. The local SST–rainfall relationship reveals that the Maritime Continent (MC) SST can act as an engine to regulate and maintain the decadal PJ pattern. Driven by enhanced convection over the MC, anomalous divergent flows in the upper troposphere move northward, cross the equator, and then converge and subside over the SCS. The SCS low-level divergence, maintained by this meridional overturning circulation under the Sverdrup vorticity balance, further works as a Rossby wave source and excites the decadal PJ pattern pointing straight northward. The transhemispheric impacts of the MC SST are well reproduced by both the atmospheric general circulation model and the dry linear baroclinic model, with the former emphasizing the MC’s original forcing role and the latter highlighting the SCS anticyclone’s role in relaying and amplifying those climatic impacts. Thus, our results indicate that SST variations over the MC region can be viewed as a potential source of East Asian decadal climate predictability.
Demonstrating a Probabilistic Quantitative Precipitation Estimate for Evaluating Precipitation Forecasts in Complex Terrain
Authors: Bytheway Janice L. , Abel Mimi R. , Cifelli Rob , Mahoney Kelly , English Jason M. 
Published: November 2021

Abstract
Accurate quantitative precipitation estimates (QPEs) at high spatial and temporal resolution are difficult to obtain in regions of complex terrain due to the large spatial heterogeneity of orographically enhanced precipitation, sparsity of gauges, precipitation phase variations, and terrain effects that impact the quality of remotely sensed estimates. The large uncertainty of QPE in these regions also makes the evaluation of high-resolution quantitative precipitation forecasts (QPFs) challenging, as it can be difficult to choose a reference QPE that is reliable at both high and low elevations. In this paper we demonstrate a methodology to combine information from multiple high-resolution hourly QPE products to evaluate QPFs from NOAA’s High-Resolution Rapid Refresh (HRRR) model in a region of Northern California. The methodology uses the quantiles of monthly QPE distributions to determine a range of hourly precipitation that correspond to “good,” “possible,” “underestimated,” or “overestimated” QPFs. In this manuscript, we illustrate the use of the methodology to evaluate QPFs for seven atmospheric river events that occurred during the 2016–17 wet season in Northern California. Because the presence of frozen precipitation is often not captured by traditional QPE products, we evaluate QPFs both for all precipitation, and with likely frozen precipitation excluded. The methodology is shown to provide useful information to evaluate model performance while taking into account the uncertainty of available QPE at various temporal and spatial scales. The potential of the technique to evaluate changes between model versions is also shown.
The Influence of WSR-88D Intra-Volume Scanning Strategies on Thunderstorm Observations and Warnings in the Dual-Polarization Radar Era: 2011–20
Authors: Kingfield Darrel M. , French Michael M. 
Published: November 2021

Abstract
The Weather Surveillance Radar-1988 Doppler (WSR-88D) network has undergone several improvements in the last decade with the upgrade to dual-polarization capabilities and the ability for forecasters to rescan the lowest levels of the atmosphere more frequently through the use of Supplemental Adaptive Intra-volume Scanning (SAILS). SAILS reduces the revisit period for scanning the lowest 1 km of the atmosphere but comes at the cost of a longer delay between scans at higher altitudes. This study quantifies how often radar volume coverage patterns (VCPs) and all available SAILS options are used during the issuance of 148 882 severe thunderstorm and 18 263 tornado warnings, and near 10 474 tornado, 58 934 hail, and 127 575 wind reports in the dual-polarization radar era. A large majority of warnings and storm reports were measured with a VCP providing denser low-level sampling coverage. More frequent low-level updates were employed near tornado warnings and reports compared to severe thunderstorm warnings and hail or wind hazards. Warnings issued near a radar providing three extra low-level scans (SAILSx3) were more likely to be verified by a hazard with a positive lead time than warnings with fewer low-level scans. However, extra low-level scans were more frequently used in environments supporting organized convection as shown using watches issued by the Storm Prediction Center. In recent years, the number of midlevel radar elevation scans is declining per hour, which can adversely affect the tracking of convective polarimetric signatures, like ZDR columns, which were found above the lowest elevation angle in over 99% of cases examined.
Age-Adjusted Normative Values for Hip Patient-Reported Outcome Measures
Authors: Sharfman Zachary T. , Safran Nathan , Amar Eyal , Varshneya Kunal , Safran Marc R. , Rath Ehud 
Published: November 2021

Background: Patient-reported outcome measures (PROMs) are essential clinical instruments used for assessing patient function, assisting in clinical decision making, and quantifying outcomes of surgical and nonsurgical management. However, PROMs are often designed using patients with preexisting pathology and typically assume that a patient without the pathology would have a perfect or near perfect score. This may result in unrealistic expectations or falsely underestimate how well a patient is doing after treatment. The influence of age on PROMs about the hip of healthy individuals has not been studied. Hypothesis: We hypothesize that in asymptomatic individuals hip-specific PROM scores will decrease in an age-dependent manor. Study Design: Cross-sectional study; Level of evidence, 3. Methods: In this multicenter survey study, volunteers who denied preexisting hip pathology and previous hip surgery completed 3 PROMs online or as traditional paper questionnaires. The International Hip Outcome Tool (iHOT), the modified Harris Hip Score (mHHS), and the Hip Outcome Score–Activities of Daily Living (HOS-ADL) and HOS—Sport were completed. Analysis of variance with a Tukey post hoc test was used to analyze differences in PROMs among subgroups. An independent-samples Student t test and a χ2 test were used to analyze differences in continuous and categorical data, respectively. Results: In total 496, 571, 534, and 532 responses were collected for the iHOT, mHHS, HOS-ADL, and HOS–Sport, respectively. Respondents’ PROMs were scored and arranged into 3 groups by age: <40 years, 40 to 60 years, and >60 years. The iHOT, mHHS, HOS-ADL, and HOS–Sport of these asymptomatic respondents all decreased in an age-dependent manner: iHOT (<40, 94.1; 40-60, 92.4; >60, 87.0), mHHS (<40, 94.8; 40-60, 91.3; >60, 89.1), HOS-ADL (<40, 98.4; 40-60, 95.0; >60, 90.9), and HOS–Sport (<40, 95.7; 40-60, 82.9; >60, 72.9) (analysis of variance between-group differences, P < .05). Conclusion: This study demonstrated that the iHOT, mHHS, and HOS-ADL and HOS–Sport scores in asymptomatic people decrease in an age-dependent manner. It is important to compare a patient’s outcome scores with the age-normalized scores to establish an accurate reference frame with which to interpret outcomes.
Faecal haemoglobin concentrations in women and men diagnosed with colorectal cancer in a national screening programme
Authors: Clark Gavin RC , Digby Jayne , Fraser Callum G , Strachan Judith A , Steele Robert JC 
Published: November 2021

Objective There is evidence that colorectal cancer screening using faecal haemoglobin is less effective in women than men. The faecal haemoglobin concentrations were therefore examined in women and men with screen-detected colorectal cancer. Setting Scottish Bowel Screening Programme, following the introduction of a faecal immunochemical test from November 2017, to March 2020. Methods Data were collated on faecal haemoglobin concentrations, pathological stage and anatomical site of the main lesion in participants who had colorectal cancer detected. The data in women and men were compared. Results For the faecal haemoglobin concentrations studied (>80 µg Hb/g faeces), the distributions indicated lower concentrations in women. Marked differences were found between women and men diagnosed with colorectal cancer. The median faecal haemoglobin concentration for women ( n = 720) was 408 µg Hb/g faeces compared to 473 µg Hb/g faeces for men ( n = 959) ( p = 0.004) and 50.6% of the results were >400 µg Hb/g faeces in women; in men, this was 57.8%. The difference in faecal haemoglobin concentrations in women and men became less statistically significant as stage advanced from stages I–IV. For right-sided, left-sided and rectal colorectal cancer, a similar gender difference persisted in all sites. Differences in faecal haemoglobin between the genders were significant for left-sided cancers and stage I and approached significance for rectal cancers and stage II, but all sites and stages showed lower median faecal haemoglobin concentrations for women. Conclusions To minimise gender inequalities, faecal immunochemical test-based colorectal cancer screening programmes should evaluate a strategy of using different faecal haemoglobin concentration thresholds in women and men.
Awareness and knowledge of diabetic retinopathy in diabetic patients at a General Hospital in Northwest Ethiopia
Authors: Mersha Getasew Alemu , Alimaw Yezinash Addis , Woredekal Asamere Tsegaw , Assaye Aragaw Kegne , Zeleke Tarekegn Chekilie 
Published: November 2021

Objective: Diabetic retinopathy is an evident complication of diabetes on eye and contributes for significant portion of blindness worldwide. In Ethiopia, data are lacking on awareness and knowledge of diabetic retinopathy in diabetic patients. This study desired to assess knowledge of diabetic retinopathy and it is relating factors among diabetic patients attending at a General Hospital in Ethiopia. Methods: We have interviewed 306 diabetic patients who were attending at Debre Tabor General Hospital. Binary logistic regression model was used to recognize associated factors to good knowledge of diabetic retinopathy. Adjusted odds ratio was used to show the power of association. A p-value of less than 0.05 was set to determine its statistical significance. Result: The diabetic patients had a median age of 45 (range = 30) years. From the total diabetic patients, 242 (79.10%) knew that diabetes could affect the eye and 81 (26.50%) were aware of diabetic retinopathy. From those who were informed of diabetic retinopathy, 32 (39.50%) (95% confidence interval = 27.90–51.20) had good knowledge of diabetic retinopathy. High educational status (adjusted odds ratio = 4.08, 95% confidence interval = 1.00–16.50) and non-government employee (adjusted odds ratio = 0.19, 95% confidence interval = 0.05–0.70) were significantly associated with good knowledge of diabetic retinopathy. Physicians and eye doctors were the most frequent source of information for the awareness of diabetic retinopathy. Conclusion: From the total diabetic patients recruited in the study, 39.5% of them obtained information about diabetic retinopathy and the overall knowledge was poor among them. Knowledge of diabetes can affect the eye and it causes blindness was good among majority of the participants. Higher educational status and being a non-government employee were determined to be important predisposing factors of good knowledge. It is also better to involve diabetic educators and counselors in educating diabetic patients on the serious complication of diabetes on eye.
Changes in Medial Elbow Joint Space When Elbow Valgus Stress Is Applied at Different Limb Positions and Loads In Vivo
Authors: Yoshioka Kanta , Matsuzawa Kanta , Ikuta Tomoya , Maruyama Sae , Edama Mutsuaki 
Published: November 2021

Background: Ulnar collateral ligament (UCL) injury is a common sports injury among overhead-throwing athletes and causes medial elbow pain and instability. UCL injury is generally diagnosed based on symptoms, physical findings, and image evaluation. To standardize the method for evaluating elbow valgus instability, more information is needed regarding changes in the medial elbow joint space (JS) in healthy elbows. Purpose/Hypothesis: The purpose of this study was to measure the JS during the application of elbow valgus stress at different elbow flexion angles and loads and to clarify the presence of defensive muscle contractions during elbow valgus stress. It was hypothesized that the JS will differ according to different limb positions and loads and that defensive contractions will occur when elbow valgus stress is >90 N. Study Design: Controlled laboratory study. Methods: Elbow joints on the nondominant side were examined in 20 healthy male university students (mean age, 21 ± 0.2 years) at 30°, 60°, and 90° of elbow flexion. To create valgus stress on the elbow, loads of 30, 60, 90, 120, and 150 N were applied with a Telos stress device and with gravity stress on the forearm. The medial JS was measured ultrasonographically during the application of elbow valgus stress. Electrodes were attached to the pronator teres muscle, and defensive muscle contractions were measured using electromyography during the application of elbow valgus stress. Repeated-measures analysis of variance and paired t tests were used to compare the JS at each elbow angle and each valgus stress load, and the Bonferroni method was used as a post hoc test. Results: At 30° of elbow flexion, the JS was significantly higher at 30 N versus 0 N and at 60 N versus 0 or 30 N ( P ≤ .018 for all). At 60° of flexion, the JS was significantly higher at 30 N versus 0 N, at 60 N versus 0 and 30 N, and at 90 N versus 0, 30, and 60 N ( P ≤ .024 for all). At 90° of elbow flexion, the JS was significantly higher at 30 N versus 0 N and at 60 N versus 0 and 30 N ( P ≤ .028 for all). Defensive muscle contraction did not occur at any elbow flexion angles at elbow valgus stress ≤60 N. Conclusion: The lack of muscular contraction at elbow valgus stress ≤60 N may reflect the function of the medial collateral ligament. Clinical Relevance: Elbow valgus stress ≤60 N allows for the evaluation of the joint opening.
HaplotypeTools: a toolkit for accurately identifying recombination and recombinant genotypes
Authors: Farrer Rhys A. 
Published: November 2021

Abstract
Background
Identifying haplotypes is central to sequence analysis in diploid or polyploid genomes. Despite this, there remains a lack of research and tools designed for physical phasing and its downstream analysis.

Results
HaplotypeTools is a new toolset to phase variant sites using VCF and BAM files and to analyse phased VCFs. Phasing is achieved via the identification of reads overlapping ≥ 2 heterozygous positions and then extended by additional reads, a process that can be parallelized across a computer cluster. HaplotypeTools includes various utility scripts for downstream analysis including crossover detection and phylogenetic placement of haplotypes to other lineages or species. HaplotypeTools was assessed for accuracy against WhatsHap using simulated short and long reads, demonstrating higher accuracy, albeit with reduced haplotype length. HaplotypeTools was also tested on real Illumina data to determine the ancestry of hybrid fungal isolate Batrachochytrium dendrobatidis (Bd) SA-EC3, finding 80% of haplotypes across the genome phylogenetically cluster with parental lineages BdGPL (39%) and BdCAPE (41%), indicating those are the parental lineages. Finally, ~ 99% of phasing was conserved between overlapping phase groups between SA-EC3 and either parental lineage, indicating mitotic gene conversion/parasexuality as the mechanism of recombination for this hybrid isolate. HaplotypeTools is open source and freely available from https://github.com/rhysf/HaplotypeTools under the MIT License.

Conclusions
HaplotypeTools is a powerful resource for analyzing hybrid or recombinant diploid or polyploid genomes and identifying parental ancestry for sub-genomic regions.
Successful intergeneric transfer of a major apple scab resistance gene (Rvi6) from apple to pear and precise comparison of the downstream molecular mechanisms of this resistance in both species
Authors: Perchepied L. , Chevreau E. , Ravon E. , Gaillard S. , Pelletier S. , Bahut M. , Berthelot P. , Cournol R. , Schouten H. J. , Vergne E. 
Published: November 2021

Abstract
Background
Scab is the most important fungal disease of apple and pear. Apple (Malus x domestica Borkh.) and European pear (Pyrus communis L.) are genetically related but they are hosts of two different fungal species: Venturia inaequalis for apple and V. pyrina for European pear. The apple/V. inaequalis pathosystem is quite well known, whereas knowledge about the pear/V. pyrina pathosystem is still limited. The aim of our study was to analyse the mode of action of a major resistance gene of apple (Rvi6) in transgenic apple and pear plants interacting with the two scab species (V. inaequalis and V. pyrina), in order to determine the degree of functional transferability between the two pathosystems.

Results
Transgenic pear clones constitutively expressing the Rvi6 gene from apple were compared to a scab transgenic apple clone carrying the same construct. After inoculation in greenhouse with V. pyrina, strong defense reactions and very limited sporulation were observed on all transgenic pear clones tested. Microscopic observations revealed frequent aborted conidiophores in the Rvi6 transgenic pear / V. pyrina interaction. The macro- and microscopic observations were very comparable to the Rvi6 apple / V. inaequalis interaction. However, this resistance in pear proved variable according to the strain of V. pyrina, and one of the strains tested overcame the resistance of most of the transgenic pear clones. Comparative transcriptomic analyses of apple and pear resistant interactions with V. inaequalis and V. pyrina, respectively, revealed different cascades of molecular mechanisms downstream of the pathogen recognition by Rvi6 in the two species. Signal transduction was triggered in both species with calcium (and G-proteins in pear) and interconnected hormonal signaling (jasmonic acid in pear, auxins in apple and brassinosteroids in both species), without involvement of salicylic acid. This led to the induction of defense responses such as a remodeling of primary and secondary cell wall, lipids biosynthesis (galactolipids in apple and cutin and cuticular waxes in pear), systemic acquired resistance signal generation (in apple) or perception in distal tissues (in pear), and the biosynthesis of phenylpropanoids (flavonoids in apple but also lignin in pear).

Conclusion
This study is the first example of a successful intergeneric transfer of a resistance gene among Rosaceae, with a resistance gene functioning towards another species of pathogen.
Hybrid repair of aberrant right subclavian artery with aortic dissection caused by Kommerell diverticulum
Authors: Li Tieyan , Zou Lin , Feng Yunzhen , Fan Guoliang , Xin Yuanfeng 
Published: November 2021

Abstract
Background
Aberrant right subclavian artery (ARSA) with associated Kommerell diverticulum (KD) is a rare congenital aortic disease. KD patients have a high risk of rupture, dissection, and compression of adjacent structures. Although several treatment options have been proposed (traditional surgery, hybrid operation, and endovascular intervention), a consensus regarding optimal surgical management has not yet been established.

Case presentation
A case of successful hybrid repair of distal aortic arch dissection aneurysm by dissecting KD and ARSA with debranching of right and left common carotid arteries, left subclavian artery, and stent grafting was presented.

Conclusions
The hybrid operation is suitable for elderly patients or those with high risks. Along with intervention, the hybrid operation needs to be developed as a minimally invasive method.