bluuebunny/crossref_metadata_2025_split huggingface dataset:
The effect of emission lines on the performance of photometric redshift estimation algorithms
Authors: Csörnyei Géza , Dobos László , Csabai István 
Published: January 2021

ABSTRACT
We investigate the effect of strong emission line galaxies on the performance of empirical photometric redshift estimation methods. In order to artificially control the contribution of photometric error and emission lines to total flux, we develop a PCA-based stochastic mock catalogue generation technique that allows for generating infinite signal-to-noise ratio model spectra with realistic emission lines on top of theoretical stellar continua. Instead of running the computationally expensive stellar population synthesis and nebular emission codes, our algorithm generates realistic spectra with a statistical approach, and – as an alternative to attempting to constrain the priors on input model parameters – works by matching output observational parameters. Hence, it can be used to match the luminosity, colour, emission line and photometric error distribution of any photometric sample with sufficient flux-calibrated spectroscopic follow-up. We test three simple empirical photometric estimation methods and compare the results with and without photometric noise and strong emission lines. While photometric noise clearly dominates the uncertainty of photometric redshift estimates, the key findings are that emission lines play a significant role in resolving colour space degeneracies and good spectroscopic coverage of the entire colour space is necessary to achieve good results with empirical photo-z methods. Template-fitting methods, on the other hand, must use a template set with sufficient variation in emission line strengths and ratios, or even better, first estimate the redshift empirically and fit the colours with templates at the best-fit redshift to calculate the K-correction and various physical parameters.
EDTAKI: a Nephrology and Public Policy Committee platform call for more European involvement in acute kidney injury
Authors: Vanholder Raymond , Rondeau Eric , Anders Hans-Joachim , Carlson Nicholas , Fliser Danilo , Kanbay Mehmet , Lopes José António , Murray Patrick T , Ortiz Alberto , Sanz Ana B , Selby Nicholas M , Wiecek Andrzej , Massy Ziad A 
Published: January 2021

Abstract

Background
Acute kidney injury (AKI) is an often neglected but crucial element of clinical nephrology. The aim of the Nephrology and Public Policy Committee (NPPC) of the European Renal Association–European Dialysis and Transplant Association is to promote several key aspects of European nephrology. One of the targets proposed by the NPPC was to advance European nephrology involvement in AKI.

Methods
We undertook a literature analysis to define the current position of European nephrology in the field of AKI compared with other regions and to determine how different European countries compare with each other.

Results
It appeared that vis-à-vis countries with a comparable socio-economic status (the USA, Australia, New Zealand and Canada), the European contribution was almost 50% less. Within Europe, Central and Eastern Europe and countries with a lower gross domestic product showed lower scientific output. Nephrologists contributed to less than half of the output. There was no trend of a change over the last decade.

Conclusions
There is room to improve the contribution of European nephrology in the field of AKI. We propose a model on how to promote clinical collaboration on AKI across Europe and the creation of a pan-European nephrology network of interested units to improve clinical outcomes, increase nephrologist involvement and awareness outside nephrology and stimulate research on AKI in Europe. Accordingly, we also propose a list of research priorities and stress the need for more European funding of AKI research.
Clinical utility of genetic testing in early-onset kidney disease: seven genes are the main players
Authors: Domingo-Gallego Andrea , Pybus Marc , Bullich Gemma , Furlano Mónica , Ejarque-Vila Laia , Lorente-Grandoso Laura , Ruiz Patricia , Fraga Gloria , López González Mercedes , Piñero-Fernández Juan Alberto , Rodríguez-Peña Lidia , Llano-Rivas Isabel , Sáez Raquel , Bujons-Tur Anna , Ariceta Gema , Guirado Lluis , Torra Roser , Ars Elisabet 
Published: January 2021

Abstract

Background
Inherited kidney diseases are one of the leading causes of chronic kidney disease (CKD) that manifests before the age of 30 years. Precise clinical diagnosis of early-onset CKD is complicated due to the high phenotypic overlap, but genetic testing is a powerful diagnostic tool. We aimed to develop a genetic testing strategy to maximize the diagnostic yield for patients presenting with early-onset CKD and to determine the prevalence of the main causative genes.

Methods
We performed genetic testing of 460 patients with early-onset CKD of suspected monogenic cause using next-generation sequencing of a custom-designed kidney disease gene panel in addition to targeted screening for c.428dupC MUC1.

Results
We achieved a global diagnostic yield of 65% (300/460), which varied depending on the clinical diagnostic group: 77% in cystic kidney diseases, 76% in tubulopathies, 67% in autosomal dominant tubulointerstitial kidney disease, 61% in glomerulopathies and 38% in congenital anomalies of the kidney and urinary tract. Among the 300 genetically diagnosed patients, the clinical diagnosis was confirmed in 77%, a specific diagnosis within a clinical diagnostic group was identified in 15%, and 7% of cases were reclassified. Of the 64 causative genes identified in our cohort, 7 (COL4A3, COL4A4, COL4A5, HNF1B, PKD1, PKD2 and PKHD1) accounted for 66% (198/300) of the genetically diagnosed patients.

Conclusions
Two-thirds of patients with early-onset CKD in this cohort had a genetic cause. Just seven genes were responsible for the majority of diagnoses. Establishing a genetic diagnosis is crucial to define the precise aetiology of CKD, which allows accurate genetic counselling and improved patient management.
Magnetic Resonance Imaging-Guided Laser Thermal Ventral Capsulotomy for Intractable Obsessive-Compulsive Disorder
Authors: McLaughlin Nicole C R , Lauro Peter M , Patrick Morgan T , Pucci Francesco G , Barrios-Anderson Adriel , Greenberg Benjamin D , Rasmussen Steven A , Asaad Wael F 
Published: January 2021

Abstract

BACKGROUND
Obsessive-compulsive disorder (OCD) is a disabling condition characterized by intrusive thoughts and repetitive behaviors. A subset of individuals have severe, treatment-resistant illness and are nonresponsive to medication or behavioral therapies. Without response to conventional therapeutic options, surgical intervention becomes an appropriate consideration.

OBJECTIVE
To report clinical outcomes and the safety profile of bilateral ventral anterior capsulotomy for OCD using magnetic resonance (MR)-guided laser interstitial thermal therapy (LITT) in 10 patients followed for 6 to 24 mo.

METHODS
A total of 10 patients underwent LITT for severe OCD; 1 patient withdrew prior to follow-up. LITT is a minimally invasive ablative technique performed with precise targeting and use of thermography under MR guidance. Lesions of the ventral anterior limb of the internal capsule by other techniques have been shown to be efficacious in prior studies.

RESULTS
A total of 7 of the 9 patients were considered full responders (77.8%; Yale-Brown Obsessive-Compulsive Scale change ≥35%). Adverse effects included transient apathy/amotivation postsurgery (2 patients). One patient had a small tract hemorrhage where the laser fiber traversed the cerebral cortex as well as persistent insomnia postsurgery. One individual died after a drug overdose 7 mo postsurgery, which was judged unrelated to the surgery.

CONCLUSION
LITT ventral capsulotomy was generally well tolerated, with promising evidence of effectiveness in the largest such series to date. Results were comparable to those after gamma knife ventral capsulotomy, as well as ventral anterior limb deep brain stimulation.
Targeting HSPA1A in ARID2-deficient lung adenocarcinoma
Authors: Wang Xue , Wang Yuetong , Fang Zhaoyuan , Wang Hua , Zhang Jian , Zhang Longfu , Huang Hsinyi , Jiang Zhonglin , Jin Yujuan , Han Xiangkun , Hou Shenda , Zhou Bin , Meng Feilong , Chen Luonan , Wong Kwok-Kin , Liu Jinfeng , Zhang Zhiqi , Zhang Xin , Chen Haiquan , Sun Yihua , Hu Liang , Ji Hongbin 
Published: January 2021

Abstract
Somatic mutations of the chromatin remodeling gene ARID2 are observed in ∼7% of human lung adenocarcinomas (LUADs). However, the role of ARID2 in the pathogenesis of LUADs remains largely unknown. Here we find that ARID2 expression is decreased during the malignant progression of both human and mice LUADs. Using two KrasG12D-based genetically engineered murine models, we demonstrate that ARID2 knockout significantly promotes lung cancer malignant progression and shortens overall survival. Consistently, ARID2 knockdown significantly promotes cell proliferation in human and mice lung cancer cells. Through integrative analyses of ChIP-Seq and RNA-Seq data, we find that Hspa1a is up-regulated by Arid2 loss. Knockdown of Hspa1a specifically inhibits malignant progression of Arid2-deficient but not Arid2-wt lung cancers in both cell lines as well as animal models. Treatment with an HSPA1A inhibitor could significantly inhibit the malignant progression of lung cancer with ARID2 deficiency. Together, our findings establish ARID2 as an important tumor suppressor in LUADs with novel mechanistic insights, and further identify HSPA1A as a potential therapeutic target in ARID2-deficient LUADs.
Planned Obsolescence in the Context of a Holistic Legal Sphere and the Circular Economy
Authors: Malinauskaite Jurgita , Erdem Fatih Buğra 
Published: January 2021

Abstract
Businesses may take advantage of rapid technological developments to increase sales by designing products with a short lifespan and encouraging consumers to buy a replacement more quickly than they otherwise might have to, which is commonly known as planned obsolescence. While employing a holistic approach and exploring planned obsolescence from three different angles—the demand side, supply side and environmental side—the article argues that the current measures in the fields of unfair competition and consumer protection law, competition law and environmental law are quite insufficient to deal with planned obsolescence. Therefore, there is a need for an EU measure outlawing planned obsolescence in the context of the circular economy.
Single-Position Surgery: Prone Lateral Lumbar Interbody Fusion: 2-Dimensional Operative Video
Authors: Ohiorhenuan Ifije E , Godzik Jakub , Uribe Juan S 
Published: January 2021

Abstract
Lateral lumbar interbody fusion (LLIF) is a widely used technique for anterior fusion. However, posterior decompression or instrumentation often requires repositioning the patient, which increases operative time. This video describes the prone LLIF as a modification of the standard surgical technique. The prone LLIF facilitates simultaneous decompression and fusion, which avoids the need for repositioning the patient, increasing operative efficiency. Positioning, fluoroscopic considerations, and operative nuances involved in performing the LLIF in the prone position are described, and an illustrative case is presented. The patient provided informed consent for the procedure and videography. LLIF in the prone position can decrease operative time and increase operative efficiency. The prone position is a viable alternative to the conventional lateral decubitus position.

Video used with permission from Barrow Neurological Institute, Phoenix, Arizona.
The LARGE2-APO1/APO2 regulatory module controls panicle size and grain number in rice
Authors: Huang Luojiang , Hua Kai , Xu Ran , Zeng Dali , Wang Ruci , Dong Guojun , Zhang Guozheng , Lu Xueli , Fang Na , Wang Dekai , Duan Penggen , Zhang Baolan , Liu Zupei , Li Na , Luo Yuehua , Qian Qian , Yao Shanguo , Li Yunhai 
Published: January 2021

Abstract
Panicle size and grain number are important agronomic traits and influence grain yield in rice (Oryza sativa), but the molecular and genetic mechanisms underlying panicle size and grain number control remain largely unknown in crops. Here we report that LARGE2 encodes a HECT-domain E3 ubiquitin ligase OsUPL2 and regulates panicle size and grain number in rice. The loss of function large2 mutants produce large panicles with increased grain number, wide grains and leaves, and thick culms. LARGE2 regulates panicle size and grain number by repressing meristematic activity. LARGE2 is highly expressed in young panicles and grains. Biochemical analyses show that LARGE2 physically associates with ABERRANT PANICLE ORGANIZATION1 (APO1) and APO2, two positive regulators of panicle size and grain number, and modulates their stabilities. Genetic analyses support that LARGE2 functions with APO1 and APO2 in a common pathway to regulate panicle size and grain number. These findings reveal a novel genetic and molecular mechanism of the LARGE2-APO1/APO2 module-mediated control of panicle size and grain number in rice, suggesting that this module is a promising target for improving panicle size and grain number in crops.
Transcriptional reprogramming of xylem cell wall biosynthesis in tension wood
Authors: Liu Baoguang , Liu Juan , Yu Jing , Wang Zhifeng , Sun Yi , Li Shuang , Lin Ying-Chung Jimmy , Chiang Vincent L , Li Wei , Wang Jack P 
Published: January 2021

Abstract
Tension wood (TW) is a specialized xylem tissue developed under mechanical/tension stress in angiosperm trees. TW development involves transregulation of secondary cell wall genes, which leads to altered wood properties for stress adaptation. We induced TW in the stems of black cottonwood (Populus trichocarpa, Nisqually-1) and identified two significantly repressed transcription factor (TF) genes: class B3 heat-shock TF (HSFB3-1) and MYB092. Transcriptomic analysis and chromatin immunoprecipitation (ChIP) were used to identify direct TF–DNA interactions in P. trichocarpa xylem protoplasts overexpressing the TFs. This analysis established a transcriptional regulatory network in which PtrHSFB3-1 and PtrMYB092 directly activate 8 and 11 monolignol genes, respectively. The TF–DNA interactions were verified for their specificity and transactivator roles in 35 independent CRISPR-based biallelic mutants and overexpression transgenic lines of PtrHSFB3-1 and PtrMYB092 in P. trichocarpa. The gene-edited trees (mimicking the repressed PtrHSFB3-1 and PtrMYB092 under tension stress) have stem wood composition resembling that of TW during normal growth and under tension stress (i.e., low lignin and high cellulose), whereas the overexpressors showed an opposite effect (high lignin and low cellulose). Individual overexpression of the TFs impeded lignin reduction under tension stress and restored high levels of lignin biosynthesis in the TW. This study offers biological insights to further uncover how metabolism, growth, and stress adaptation are coordinately regulated in trees.
Artificial Intelligence and Deep Learning in Diagnostic Radiology—Is This The Next Phase of Scientific and Technological Development?
Authors: Moores B Michael 
Published: January 2021

Abstract
This paper is concerned with the role of science and technology in helping to create change in society. Diagnostic radiology is an example of an activity that has undergone significant change due to such developments, which over the past 40 years have led to a huge increase in the volume of medical imaging data generated. However, these developments have by and large left the human elements of the radiological process (referrer, radiographer and radiologist) intact.
Diagnostic radiology has now reached a stage whereby the volume of information generated cannot be fully utilised solely by employing human observers to form clinical opinions, a process that has not changed in over 100 years. In order to address this problem, the potential application of Artificial Intelligence (AI) in the form of Deep Learning (DL) techniques to diagnostic radiology indicates that the next technological development phase may already be underway. The paper outlines the historical development of AI techniques, including Machine Learning and DL Neural Networks and discusses how such developments may affect radiological practice over the coming decades. The ongoing growth in the world market for radiological services is potentially a significant driver for change.
The application of AI and DL learning techniques will place quantification of diagnostic outcomes at the heart of performance evaluation and quality standards. The effect this might have on the optimisation process will be discussed and in particular the possible need for automation in order to meet more stringent and standardised performance requirements that might result from these developments. Changes in radiological practices would also impact upon patient protection including the associated scientific support requirements and these are discussed.
Associations of the residential built environment with adolescent sleep outcomes
Authors: Mayne Stephanie L , Morales Knashawn H , Williamson Ariel A , Grant Struan F A , Fiks Alexander G , Basner Mathias , Dinges David F , Zemel Babette S , Mitchell Jonathan A 
Published: January 2021

Abstract

Study Objectives
Over 75% of US high school students obtain insufficient sleep, placing them at risk for adverse health outcomes. Identification of modifiable determinants of adolescent sleep is needed to inform prevention strategies, yet little is known about the influence of the built environment on adolescent sleep.

Methods
In this prospective study, actigraphy was used to assess sleep outcomes among 110 adolescents for 14 days each in eighth and ninth grades: duration (hours/night), onset and offset, and sleeping ≥8 hours. Home addresses were linked to built environment exposures: sound levels, tree canopy cover, street density, intersection density, population density, and housing density. Mixed-effects regression estimated associations of built environment measures with sleep outcomes, adjusting for sex, race, parent education, household income, household size, grade, weeknight status, and neighborhood poverty.

Results
A 1-standard deviation (SD) increase in neighborhood sound was associated with 16 minutes later sleep onset (β = 0.28; 95% confidence interval (CI): 0.06, 0.49) and 25% lower odds of sleeping for ≥8 hours (odds ratio (OR) = 0.75, 95% CI: 0.59, 0.96). A 1-SD increase in neighborhood tree canopy was associated with 18 minutes earlier sleep onset (β = −0.31, 95% CI: −0.49, −0.13) and 10 minutes earlier sleep offset (β= −0.17, 95% CI: −0.28, −0.05). No associations were observed for density-based exposures.

Conclusions
Higher neighborhood sound level was associated with lower odds of sufficient sleep, while higher tree canopy cover was associated with more favorable sleep timing. Neighborhood sound levels and tree canopy cover are potential targets for policies and interventions to support healthier sleep among adolescents.
Working Memory Capacities Neurally Dissociate: Evidence from Acute Stroke
Authors: Martin Randi C , Ding Junhua , Hamilton A Cris , Schnur Tatiana T 
Published: January 2021

Abstract
Substantial behavioral evidence implies the existence of separable working memory (WM) components for maintaining phonological and semantic information. In contrast, only a few studies have addressed the neural basis of phonological versus semantic WM using functional neuroimaging and none has used a lesion-symptom mapping (LSM) approach. Here, we address this gap, reporting a multivariate LSM study of phonological and semantic WM for 94 individuals at the acute stage of left hemisphere stroke. Testing at the acute stage avoids issues of brain reorganization and the adoption of patient strategies for task performance. The LSM analyses for each WM component controlled for the other WM component and semantic and phonological knowledge at the single word level. For phonological WM, the regions uncovered included the supramarginal gyrus, argued to be the site of phonological storage, and several cortical and subcortical regions plausibly related to inner rehearsal. For semantic WM, inferior frontal regions and the angular gyrus were uncovered. The findings thus provide converging evidence for separable systems for phonological and semantic WM that are distinguished from the systems supporting long-term knowledge representations in those domains.
Does Malaria Co-Infection Alter the Clinical Course in Children Infected with Dengue? Analysis from 623 Indian Children Admitted with Dengue Infection
Authors: Bhakhri Bhanu Kiran , Singh Dharmendra Kumar , Singh Nupur , Rai Ruchi 
Published: January 2021

AbstractBackgroundDengue and malaria co-infection has been reported in several case reports. We aim to study effect of malaria co-infection on clinical outcomes of dengue infection.MethodsRecords of 623 children with dengue infection, based on NS-1 antigen and IgM ELISA testing, were collected. Malaria co-infection was identified in 20 cases, based on peripheral blood smear examination. Clinical and hematological parameters were compared in two groups (malaria co-infection vs. dengue mono-infection).ResultsDuration of hospitalization was significantly higher in co-infected group. Significantly higher proportion of malaria co-infection cases had hepatosplenomegaly, hemoglobin ≤8 g/dl, serum albumin ≤3 g/dl, serum bilirubin ≥1 mg/dl, serum aspartate aminotransferase ≥500 U/l and serum alanine aminotransferase ≥300 U/l. Number of transfusions (PRBC and platelets) required in malaria co-infection group was higher.ConclusionMalaria co-infection in dengue impacts clinical presentation, hematological parameters, requirement of blood transfusion and morbidity. High index of suspicion is warranted while evaluating febrile patients.
Maize Plants Chimeric for an Autoactive Resistance Gene Display a Cell-Autonomous Hypersensitive Response but Non–Cell Autonomous Defense Signaling
Authors: Karre Shailesh , Kim Saet-Byul , Kim Bong-Suk , Khangura Rajdeep S. , Sermons Shannon M. , Dilkes Brian , Johal Guri , Balint-Kurti Peter 
Published: January 2021

The maize gene Rp1-D21 is a mutant form of the gene Rp1-D that confers resistance to common rust. Rp1-D21 triggers a spontaneous defense response that occurs in the absence of the pathogen and includes a programed cell death called the hypersensitive response (HR). Eleven plants heterozygous for Rp1-D21, in four different genetic backgrounds, were identified that had chimeric leaves with lesioned sectors showing HR abutting green nonlesioned sectors lacking HR. The Rp1-D21 sequence derived from each of the lesioned portions of leaves was unaltered from the expected sequence whereas the Rp1-D21 sequences from nine of the nonlesioned sectors displayed various mutations, and we were unable to amplify Rp1-D21 from the other two nonlesioned sectors. In every case, the borders between the sectors were sharp, with no transition zone, suggesting that HR and chlorosis associated with Rp1-D21 activity was cell autonomous. Expression of defense response marker genes was assessed in the lesioned and nonlesioned sectors as well as in near-isogenic plants lacking and carrying Rp1-D21. Defense gene expression was somewhat elevated in nonlesioned sectors abutting sectors carrying Rp1-D21 compared with near-isogenic plants lacking Rp1-D21. This suggests that, whereas the HR itself was cell autonomous, other aspects of the defense response initiated by Rp1-D21 were not.[Formula: see text] Copyright © 2021 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license .