bluuebunny/crossref_metadata_2025_split huggingface dataset:
Extensive drug resistance during low-level HIV viraemia while taking NNRTI-based ART supports lowering the viral load threshold for regimen switch in resource-limited settings: a pre-planned analysis from the SESOTHO trial
Authors: Brown Jennifer Anne , Amstutz Alain , Nsakala Bienvenu Lengo , Seeburg Ulrike , Vanobberghen Fiona , Muhairwe Josephine , Klimkait Thomas , Labhardt Niklaus Daniel 
Published: January 2021

AbstractObjectivesWHO guidelines on ART define the HIV-1 viral load (VL) threshold for treatment failure at 1000 copies/mL. The Switch Either near Suppression Or THOusand (SESOTHO) trial, conducted in Lesotho from 2017 to 2020, found that patients with persistent viraemia below this threshold (100–999 copies/mL) benefit from switching to second-line ART. This pre-planned nested study assesses the prevalence of resistance-associated mutations (RAMs) in SESOTHO trial participants.MethodsThe SESOTHO trial [registered at ClinicalTrials.gov (NCT03088241)] enrolled 80 persons taking NNRTI-based first-line ART with low-level HIV-1 viraemia (100–999 copies/mL) and randomized them (1:1) to switch to a PI-based second-line regimen (switch) or continue on first-line therapy (control). We sequenced relevant regions of the viral pol gene using plasma samples obtained at enrolment and 36 weeks. RAMs were classified with the Stanford HIV Drug Resistance Database.ResultsSequencing data were obtained for 37/80 (46%) participants at baseline and 26/48 (54%) participants without viral suppression to &lt;50 copies/mL at 36 weeks (21 control participants and 5 switch participants). At baseline, 31/37 (84%) participants harboured high-level resistance to at least two drugs of their current regimen. At 36 weeks, 17/21 (81%) control participants harboured resistance to at least two drugs of their current regimen, while no PI-associated resistance was detected in the 5 switch participants with ongoing viraemia.ConclusionsAmong persons with low-level viraemia while taking NNRTI-based first-line ART enrolled in the SESOTHO trial, the majority harboured HIV-1 with RAMs that necessitate ART modification. These findings support lowering the VL threshold triggering a switch to second-line ART in future WHO guidelines.
Detection of Brevetoxin in Human Plasma by ELISA
Authors: Cunningham Brady R , Coleman Rebecca M , Schaefer Adam M , Hamelin Elizabeth I , Johnson Rudolph C 
Published: January 2021

Abstract
Florida red tides have become more common and persistent in and around the Gulf of Mexico. When in bloom, red tides can produce brevetoxins in high concentrations, leading to human exposures primarily through contaminated food and ocean spray. The research described here includes adapting and validating a commercial brevetoxin water test kit for human plasma testing. Pooled plasma was fortified with a model brevetoxin, brevetoxin 3, at concentrations from 0.00500 to 3.00 ng/mL to generate calibration curves and quality control samples. The quantitative detection range was determined to be 0.0400–2.00 ng/mL brevetoxin 3 equivalents with inter- and intraday accuracies ranging from 94.0% to 109% and relative standard deviations &lt;20%, which is within the US Food and Drug Administration guidelines for receptor-binding assays. Additionally, cross-reactivity was tested using 4 of the 10 known brevetoxins and 12 paralytic shellfish toxins. The cross-reactivity varied from 0.173% to 144% for the commercially available brevetoxin standards and 0% for the commercially available paralytic shellfish toxin standards. Fifty individual unexposed human plasma samples were measured to determine the limit of detection and endogenous interferences to the test. The validated method was used to test 31 plasma samples collected from humans potentially exposed to brevetoxins, detecting 11 positives. This method has been proven useful to measure human exposure to brevetoxins and can be applied to future exposure events.
Using artificial neural network and WebGL to algorithmically optimize window wall ratios of high-rise office buildings
Authors: Zhao Shenghuan 
Published: January 2021

Abstract
By coupling parametric modeling, building performance simulation engines, and optimization algorithms, optimal design choices regarding predefined building performance objectives can be automatically obtained. This becomes an emerging research topic among scholars in the fields of architecture and built environment. However, it is not easy to apply this method to real building design projects, because of two main drawbacks: Building performance simulation is too time consuming, and the numerical visualization of final results is not intuitive for architects to make decisions. Therefore, this study tries to fill these two gaps by training an artificial neural network to replace simulation engines and developing a web application to speed up the 3D visualization of selected design choices. These two strategies are applied to optimize office towers’ window wall ratios in Hangzhou, China. Architects working on new design projects in that city can obtain the optimal group of window wall ratios for four facades in 2 s, faster than using simulation engines, which cost architects 2 weeks. Moreover, architects can also efficiently observe the appearance of design solutions with the web application. By improving its usability from these two aspects, this study significantly improves the applicability of algorithmic optimization for building design projects.
Lymphangiography with lipiodol as a diagnostic and therapeutic approach for Chyle Leak ascites following Simultaneous Pancreas-Kidney Transplant
Authors: Nawabi Atta , Kahle Adam C , Baral Perel , King Clay D , Nawabi Perwaiz 
Published: January 2021

Abstract
Chylous ascites (CA) is the leakage of triglyceride-rich fluid into the peritoneal cavity. This most commonly occurs due to trauma of the lymphatic system. Recently, lymphangiography with lipiodol have been used with promising results in managing refractory postoperative CA. We present the case of a 35-year-old man who developed massive refractory CA post simultaneous pancreas-kidney (SPK) transplant. After conservative management with diet modifications failed, the patient underwent lymphangiography and lymph angioembolization using lipiodol. In this case report, we describe the use of lymphangiography as both a diagnostic and therapeutic approach to successfully manage large volume CA following SPK.
Algorithmic correspondence and canonicity for possibility semantics
Authors: Zhao Zhiguang 
Published: January 2021

Abstract
The present paper develops a unified correspondence treatment of the Sahlqvist theory for possibility semantics, extending the results in the work by Yamamoto (2016, Journal of Logic and Computation, 27, 2411–2430) from Sahlqvist formulas to the strictly larger class of inductive formulas and from the full possibility frames to filter-descriptive possibility frames. Specifically, we define the possibility semantics version of the algorithm Ackermann lemma based algorithm (ALBA) and an adapted interpretation of the expanded modal language used in the algorithm. One notable feature of the adaptation of ALBA to possibility frames setting is that the so-called nominal variables, which are interpreted as complete join-irreducibles in the standard setting, are interpreted as regular open closures of ‘singletons’ in the present setting, which is a novelty of the present paper. We prove the soundness of the algorithm with respect to both (the dual algebras of) full possibility frames and (the dual algebras of) filter-descriptive possibility frames, use the algorithm to give an alternative proof to the one in the work by Holliday (2016, Possibility frames and forcing for modal logic. UC Berkeley Working Paper in Logic and the Methodology of Science. URL. http://escholarship.org/uc/item/9v11r0dq) that the inductive formulas are constructively canonical and show that the algorithm succeeds on inductive formulas. We make some comparisons among different semantic settings in the design of the algorithms and fit possibility semantics into this broader picture.
Recreated Ancestral Opsin Associated with Marine to Freshwater Croaker Invasion Reveals Kinetic and Spectral Adaptation
Authors: Van Nynatten Alexander , Castiglione Gianni M , de A. Gutierrez Eduardo , Lovejoy Nathan R , Chang Belinda S W 
Published: January 2021

AbstractRhodopsin, the light-sensitive visual pigment expressed in rod photoreceptors, is specialized for vision in dim-light environments. Aquatic environments are particularly challenging for vision due to the spectrally dependent attenuation of light, which can differ greatly in marine and freshwater systems. Among fish lineages that have successfully colonized freshwater habitats from ancestrally marine environments, croakers are known as highly visual benthic predators. In this study, we isolate rhodopsins from a diversity of freshwater and marine croakers and find that strong positive selection in rhodopsin is associated with a marine to freshwater transition in South American croakers. In order to determine if this is accompanied by significant shifts in visual abilities, we resurrected ancestral rhodopsin sequences and tested the experimental properties of ancestral pigments bracketing this transition using in vitro spectroscopic assays. We found the ancestral freshwater croaker rhodopsin is redshifted relative to its marine ancestor, with mutations that recapitulate ancestral amino acid changes along this transitional branch resulting in faster kinetics that are likely to be associated with more rapid dark adaptation. This could be advantageous in freshwater due to the redshifted spectrum and relatively narrow interface and frequent transitions between bright and dim-light environments. This study is the first to experimentally demonstrate that positively selected substitutions in ancestral visual pigments alter protein function to freshwater visual environments following a transition from an ancestrally marine state and provides insight into the molecular mechanisms underlying some of the physiological changes associated with this major habitat transition.
DNA G-quadruplexes for native mass spectrometry in potassium: a database of validated structures in electrospray-compatible conditions
Authors: Ghosh Anirban , Largy Eric , Gabelica Valérie 
Published: January 2021

Abstract
G-quadruplex DNA structures have become attractive drug targets, and native mass spectrometry can provide detailed characterization of drug binding stoichiometry and affinity, potentially at high throughput. However, the G-quadruplex DNA polymorphism poses problems for interpreting ligand screening assays. In order to establish standardized MS-based screening assays, we studied 28 sequences with documented NMR structures in (usually ∼100 mM) potassium, and report here their circular dichroism (CD), melting temperature (Tm), NMR spectra and electrospray mass spectra in 1 mM KCl/100 mM trimethylammonium acetate. Based on these results, we make a short-list of sequences that adopt the same structure in the MS assay as reported by NMR, and provide recommendations on using them for MS-based assays. We also built an R-based open-source application to build and consult a database, wherein further sequences can be incorporated in the future. The application handles automatically most of the data processing, and allows generating custom figures and reports. The database is included in the g4dbr package (https://github.com/EricLarG4/g4dbr) and can be explored online (https://ericlarg4.github.io/G4_database.html).
Navigated Transconjunctival Endoscopic Approaches to the Orbit
Authors: Feigl Günther C , Southey Charles C , Desai Virendra R , Kullmann Marcell , Krischeck Boris , Korn Andreas , Tatagiba Marcos , Britz Gavin W 
Published: January 2021

ABSTRACT

BACKGROUND
Standard cranial approaches to the orbit involve lengthy skin incisions, extensive soft tissue dissection, and large craniotomies, increasing morbidity.

OBJECTIVE
To evaluate less invasive approaches to the orbit, using endoscopic transconjunctival approaches.

METHODS
Neuronavigated transconjunctival approaches to the orbit were performed on 4 cadavers using 30°/3 mm and 0°/6 mm rigid endoscopes. A special head frame was designed for this study to prevent excessive movement of the endoscope tip in the orbit. Lateral and medial transconjunctival supra- and infrabulbar approaches to the extra- and intraconal spaces were performed. The incision length, maximal penetration depth in the extra- and intraconal spaces, and distance from the orbital rim to the optic nerve were measured.

RESULTS
All 4 approaches afforded satisfactory exposure and access to the extra- and intraconal spaces. The mean incision length for the transconjunctival approach was 10.4 mm. The optic nerve could be exposed through all 4 approaches. The mean maximal penetration depths in the extraconal space were 28.6 ± 3.5 mm for the 30°/3 mm and 20.7 ± 4.5 mm for the 0°/6 mm endoscope. In the intraconal space, the mean maximal depth of penetration was 23.8 ± 2.4 mm for the 30°/3 mm and 19.4 ± 3.4 mm for the 0°/6 mm endoscope. Based on these measurements, the orbit was classified into quadrants and zones.

CONCLUSION
Transconjunctival endoscopic approaches to the orbit allow maximal exposure of the extra- and intraconal spaces through a minimally invasive approach requiring no muscle transection. Infrabulbar approaches have better cosmetic results than suprabulbar approaches, which require incision of the eyelid.
External Brain Tamponade Paradoxically Induced by Cerebrospinal Fluid Hypovolemia After Decompressive Craniectomy: A Retrospective Cohort Study
Authors: Motoyama Yasushi , Kogeichi Yohei , Matsuoka Ryuta , Takamura Yoshiaki , Takeshima Yasuhiro , Matsuda Ryosuke , Tamura Kentaro , Nishimura Fumihiko , Yamada Shuichi , Nakagawa Ichiro , Saito Kozue , Park Young-Su , Sugie Kazuma , Fukushima Hidetada , Nakase Hiroyuki 
Published: January 2021

ABSTRACT

BACKGROUND
Symptomatic hygroma after decompressive craniectomy (DC) presenting with a mass effect has been reported as external brain tamponade (EBT). However, the pathology of EBT is unclear.

OBJECTIVE
To survey the clinical characteristics and explore the potential causes of EBT.

METHODS
The incidence, timing of onset, and symptoms of EBT were examined among 155 patients undergoing supratentorial DC at Nara Medical University. The factors associated with EBT were investigated and compared with those with hygroma to estimate the potentially causative mechanisms.

RESULTS
We identified 81 hygromas within 30 d after DC. Among them, 10 patients had EBT, including 7 with aneurysmal subarachnoid hemorrhage (aSAH), 2 with traumatic head injury accompanying skull base fracture, and 1 with a brain tumor. The median interval between DC and EBT was 3.5 d (range 1-21 d). Altered mental status was observed in 9, and oculomotor palsy was present in 3 patients. Univariate analysis demonstrated that risk factors for EBT were aSAH (P = .02) and lumbar spinal drainage (LSD; P < .001). On the other hand, independent risk factors for hygroma included aSAH (odds ratio [OR]: 3.67, 95% confidence interval [CI]: 1.45-9.3, P < .01) and ventricular drainage (OR: .14, 95% CI: .03-.802, P = .03).

CONCLUSION
Cerebrospinal fluid (CSF) hypovolemia after DC should be considered a potential cause of EBT, which includes brain herniation into the hiatus centralis and paradoxical formation of a hygroma. Correction of CSF dynamics and cranioplasty may be effective treatments for EBT.
Pathological Features of Tumors of the Nervous System in Hereditary Cancer Predisposition Syndromes: A Review
Authors: Tadros Saber , Kondrashov Aleksei , Namagiri Sriya , Chowdhury Ashis , Banasavadi-Siddegowda Yeshavanth Kumar , Ray-Chaudhury Abhik 
Published: January 2021

Abstract
Hereditary cancer predisposition syndromes (HCS) become more recognizable as the knowledge about them expands, and genetic testing becomes more affordable. In this review, we discussed the known HCS that predispose to central and peripheral nervous system tumors. Different genetic phenomena were highlighted, and the important cellular biological alterations were summarized. Genetic mosaicism and germline mutations are features of HCS, and recently, they were described in normal population and as modifiers for the genetic landscape of sporadic tumors. Description of the tumors arising in these conditions was augmented by representative cases explaining the main pathological findings. Clinical spectrum of the syndromes and diagnostic criteria were tabled to outline their role in defining these disorders. Interestingly, precision medicine has found its way to help these groups of patients by offering targeted preventive measures. Understanding the signaling pathway alteration of mammalian target of rapamycin (mTOR) in tuberous sclerosis helped introducing mTOR inhibitors as a prophylactic treatment in these patients. More research to define the germline genetic alterations and resulting cellular signaling perturbations is needed for effective risk-reducing interventions beyond prophylactic surgeries.
A high-speed and high-efficiency imaging polarimeter based on ferroelectric liquid crystal retarders: Design and test
Authors: Guo Jing , Ren Deqing , Zhu Yongtian , Zhang Xi 
Published: January 2021

AbstractPolarimeters play a key role in investigating solar magnetic fields. In this paper, a High speed and high efficiency Imaging POlarimeter (HIPO) is proposed based on a pair of ferroelectric liquid crystal retarders (FLCs), with the ultimate goal of measuring magnetic fields of prominences and filaments from the ground. A unique feature of the HIPO is that it enables high cadence polarization measurements covering a wide field of view (FOV); the modulation frequency of the HIPO is able to achieve ∼100 Hz, which greatly suppresses the seeing-induced crosstalk, and the maximum FOV can reach 62″ × 525″. Additionally, FLC retardances under low and high states were calibrated individually and found to have a slight discrepancy, which is neglected in most works. Based on FLC calibration results, an optimization was performed using a constrained nonlinear minimization approach to obtain the maximum polarimetric efficiency. Specifically, optimized efficiencies of the Stokes Q, U, and V are well balanced and determined as (ξQ, ξU, ξV) = (0.5957, 0.5534, 0.5777), yielding a total efficiency of 0.9974. Their practical efficiencies are measured as (ξQ′, ξU′, ξV′) = (0.5934, 0.5385, 0.5747), slightly below the optimized values but still resulting in a high total efficiency of 0.9861. The HIPO shows advantages in terms of modulation frequency and polarimetric efficiency compared with most other representative ground-based solar polarimeters. In the observations, measurement accuracy is found to be better than 2.7 × 10−3 by evaluating full Stokes Hα polarimetry results of the chromosphere. This work lays a foundation for the development of high-speed and high-accuracy polarimeters for our next-generation solar instruments.
The Role of Sulphur on the Melting of Ca-Poor Sediment and on Trace Element Transfer in Subduction Zones: An Experimental Investigation
Authors: Pelleter Anne-Aziliz , Prouteau Gaëlle , Scaillet Bruno 
Published: January 2021

Abstract
We performed phase equilibrium experiments on a natural Ca-poor pelite at 3 GPa, 750–1000°C, under moderately oxidizing conditions, simulating the partial melting of such lithologies in subduction zones. Experiments investigated the effect of sulphur addition on phase equilibria and compositions, with S contents of up to ∼ 2.2 wt. %. Run products were characterized for their major and trace element contents, in order to shed light on the role of sulphur on the trace element patterns of melts produced by partial melting of oceanic Ca-poor sediments. Results show that sulphur addition leads to the replacement of phengite by biotite along with the progressive consumption of garnet, which is replaced by an orthopyroxene-kyanite assemblage at the highest sulphur content investigated. All Fe-Mg silicate phases produced with sulphur, including melt, have higher MgO/(MgO+FeO) ratios (relative to S-free/poor conditions), owing to Fe being primarily locked up by sulphide in the investigated redox range. Secular infiltration of the mantle wedge by such MgO and K2O-rich melts may have contributed to the Mg and K-rich character of the modern continental crust. Addition of sulphur does not affect significantly the stability of the main accessory phases controlling the behaviour of trace elements (monazite, rutile and zircon), although our results suggest that monazite solubility is sensitive to S content at the conditions investigated. The low temperature (∼ 800 °C) S-bearing and Ca-poor sediment sourced slab melts show Th and La abundances, Th/La systematics and HFSE signatures in agreement with the characteristics of sediment-rich arc magmas. Because high S contents diminish phengite and garnet stabilities, S-rich and Ca-poor sediment sourced slab melts have higher contents of Rb, B, Li (to a lesser extent), and HREE. The highest ratios of La/Yb are observed in sulphur-poor runs (with a high proportion of garnet, which retains HREE) and beyond the monazite out curve (which retains LREE). Sulphides appear to be relatively Pb-poor and impart high Pb/Ce ratio to coexisting melts, even at high S content. Overall, our results show that Phanerozoic arc magmas from high sediment flux margins owe their geochemical signature to the subduction of terrigenous, sometimes S-rich, sediments. In contrast, subduction of such lithologies during Archean appears unlikely or unrecorded.
Updated recommendations of the German Society for Rheumatology for the care of patients with inflammatory rheumatic diseases in times of SARS-CoV-2—methodology, key messages and justifying information
Authors: Schulze-Koops Hendrik , Krüger Klaus , Hoyer Bimba Franziska , Leipe Jan , Iking-Konert Christof , Specker Christof ,   the Commission for Pharmacotherapy and the Board of Directors of the German Society for Rheumatology
Published: January 2021

Abstract
A few days after the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection was declared a pandemic, the German Society for Rheumatology (DGRh) compiled the first group of recommendations for the care of patients with inflammatory rheumatic diseases in light of SARS-CoV-2/coronavirus disease 2019 (COVID-19). These first recommendations were based on an expert consensus and were largely non-evidence-based. Now that the first scientific data from registries, cross-sectional studies, case reports and case series are available, the DGRh has developed a timely update. This update is based on a literature search of publications available through 15 June 2020 and addresses preventive measures (such as hygiene measures or vaccinations) and the use of immunomodulatory/immunosuppressive drugs. Driven by the commitment to let patients benefit from these new evidence-based recommendations as quickly as possible, the DGRh published the update in German on its homepage and in the Zeitschrift für Rheumatologie immediately after completion. Here we report the key recommendations to make them available to the international community, provide the scientific methodology used to develop the recommendations, give additional thoughts and advice for the management of patients with rheumatic diseases during the COVID-19 pandemic and discuss our recommendations in the context of other international recommendations.