bluuebunny/crossref_metadata_2025_split huggingface dataset:
Quambalaria pitereka (J.Walker & Bertus) J.A. Simpson
Authors: CABI  , EPPO  
Published: April 2023

Abstract

A new distribution map is provided for Quambalaria pitereka (J.Walker & Bertus) J.A. Simpson. Ustilaginomycotina: Microstromatales: Quambalariaceae. Hosts: Spotted gum (
Corymbia spp.
);
Eucalyptus spp.
.
Synthesis and evaluation of magnetite nanoparticles coated with (acrylamide-vinylpyrrolidone) polymers on the thermostability for application in harsh offshore reservoirs
Authors: Nguyen Thi-Lieu , Hoang Anh-Quan , Pham Duy-Khanh , Truong Hai Bang , Nguyen Phuong-Tung 
Published: April 2023

Abstract
To avoid the instability and degradation of downhole injection fluids, such as polymers and surfactants, for use in high-temperature (HT) offshore reservoirs, nanofluids with particles modified in different ways have been proposed as a capable thermoresistant, highly active solutions which can be used in many offshore oil and gas exploitation works, especially in enhancing oil recovery. This study presented the process of synthesising two nanocomposite materials for nanofluid preparation. First, magnetite nanoparticles (MNPs(A and B)) were prepared by standard coprecipitation and hydrothermal methods. Then, polymer-coated magnetite nanoparticles (PCM(A) and PCM(B)) were synthesised by directly covering magnetite with oleic acid (OA) to get OA-MNPs, and then simultaneously enveloped with copolymers of acrylamide and the N-vinyl pyrrolidone via polymerisation reaction. The obtained PCMs characteristics were analysed by all required analytical tools. In addition, the thermostability of PCM-based nanofluids as downhole injection agents for HT offshore reservoir applications was investigated by bottle test annealing PCM(A)- and PCM(B)- based nanofluids at the White Tiger (WT) Miocene and Oligocene reservoir temperatures. Based on the obtained data, MNPs have an average particle size of 12 nm and 10 nm for MNPs A and B. A dominant phase of magnetite (Fe3O4) and 10.5% and 11% of the mass of PCM belong to their copolymer coating. The good thermostability of nanofluids annealed for 31 days (at 120 °C for PCM(A)- and 134 °C for PCM(B)-based nanofluids) showed a promised orientation for use as an EOR agent in HT offshore reservoirs recommendation.
PID and LQG controllers for diabetes system with internal delay: a comparison study
Authors: Syafiie S , AlHarbi Fahd , Alshehri Abdullah Ali , Hasanain Bassam 
Published: April 2023

Abstract
Closed-loop treatment for insulin dependent type 1 diabetes patients is a recent medical practice in insulin delivery (bionic pancreas) which aims to achieve tight control of glucose level in plasma and ensure minimizing risk of hypoglicemia. Among those most popular closed-loop controller strategies, proportional integral derivative (PID) and linear quadratic Gaussian (LQG) controllers are designed and compared for insulin delivery in diabetic patients. The controllers are designed based on individual and nominal model which is to study the ability of each controller in order to maintain blood glucose concentration for similar patient’s dynamic. The comparison is conducted numerically not only for for patients suffering type 1 diabetes mellitus (T1DM), but also type 2 diabetes mellitus (T2DM), and double diabetes mellitus (DDM) in the present of internal delay systems, which causes instability. The responses show that the proposed PID controller is better at maintaining the blood glucose level in the normal range for a longer delay of delay in hepatic glucose production. The patient with longer performing physical exercise has lower oscillation peaks in blood glucose concentration.
Rapid engineering of SARS-CoV-2 therapeutic antibodies to increase breadth of neutralization including BQ.1.1, CA.3.1, CH.1.1, XBB.1.16, and XBB.1.5
Authors: Entzminger Kevin C , Fleming Jonathan K , Entzminger Paul D , Espinosa Lisa Yuko , Samadi Alex , Hiramoto Yuko , Okumura Shigeru C J , Maruyama Toshiaki 
Published: April 2023

AbstractSARS-CoV-2 Omicron variant XBB.1.5 has shown extraordinary immune escape even for fully vaccinated individuals. There are currently no approved antibodies that neutralize this variant, and continued emergence of new variants puts immunocompromised and elderly patients at high risk. Rapid and cost-effective development of neutralizing antibodies is urgently needed. Starting with a single parent clone that neutralized the Wuhan-Hu-1 strain, antibody engineering was performed in iterative stages in real time as variants emerged using a proprietary technology called STage-Enhanced Maturation. An antibody panel that broadly neutralizes currently circulating Omicron variants was obtained by in vitro affinity maturation using phage display. The engineered antibodies show potent neutralization of BQ.1.1, XBB.1.16, and XBB.1.5 by surrogate virus neutralization test and pM KD affinity for all variants. Our work not only details novel therapeutic candidates but also validates a unique general strategy to create broadly neutralizing antibodies to current and future SARS-CoV-2 variants.
The Effect of HIV Treatment Interruption on Subsequent Immunological Response
Authors: Thomadakis Christos , Yiannoutsos Constantin T , Pantazis Nikos , Diero Lameck , Mwangi Ann , Musick Beverly S , Wools-Kaloustian Kara , Touloumi Giota 
Published: April 2023

Abstract
Recovery of CD4-positive T lymphocyte count after initiation of antiretroviral therapy (ART) has been thoroughly examined among people with human immunodeficiency virus infection. However, immunological response after restart of ART following care interruption is less well studied. We compared CD4 cell-count trends before disengagement from care and after ART reinitiation. Data were obtained from the East Africa International Epidemiology Databases to Evaluate AIDS (IeDEA) Collaboration (2001–2011; n = 62,534). CD4 cell-count trends before disengagement, during disengagement, and after ART reinitiation were simultaneously estimated through a linear mixed model with 2 subject-specific knots placed at the times of disengagement and treatment reinitiation. We also estimated CD4 trends conditional on the baseline CD4 value. A total of 10,961 patients returned to care after disengagement from care, with the median gap in care being 2.7 (interquartile range, 2.1–5.4) months. Our model showed that CD4 cell-count increases after ART reinitiation were much slower than those before disengagement. Assuming that disengagement from care occurred 12 months after ART initiation and a 3-month treatment gap, CD4 counts measured at 3 years since ART initiation would be lower by 36.5 cells/μL than those obtained under no disengagement. Given that poorer CD4 restoration is associated with increased mortality/morbidity, specific interventions targeted at better retention in care are urgently required.
EpiCompare: R package for the comparison and quality control of epigenomic peak files
Authors: Choi Sera , Schilder Brian M , Abbasova Leyla , Murphy Alan E , Skene Nathan G 
Published: April 2023

Abstract

Summary
EpiCompare combines a variety of downstream analysis tools to compare, quality control and benchmark different epigenomic datasets. The package requires minimal input from users, can be run with just one line of code and provides all results of the analysis in a single interactive HTML report. EpiCompare thus enables downstream analysis of multiple epigenomic datasets in a simple, effective and user-friendly manner.

Availability and implementation
EpiCompare is available on Bioconductor (≥ v3.15): https://bioconductor.org/packages/release/bioc/html/EpiCompare.html; all source code is publicly available via GitHub: https://github.com/neurogenomics/EpiCompare; documentation website https://neurogenomics.github.io/EpiCompare; and EpiCompare DockerHub repository: https://hub.docker.com/repository/docker/neurogenomicslab/epicompare.
Aortic cross-clamp time correlates with mortality in the mini-mitral international registry
Authors: Doenst Torsten , Berretta Paolo , Bonaros Nikolaos , Savini Carlo , Pitsis Antonios , Wilbring Manuel , Gerdisch Marc , Kempfert Jorg , Rinaldi Mauro , Folliguet Thierry , Yan Tristan , Stefano Pierluigi , Van Praet Frank , Salvador Loris , Lamelas Joseph , Nguyen Tom C , Dinh Nguyen Hoang , Färber Gloria , Di Eusanio Marco 
Published: April 2023

Abstract

OBJECTIVES
Minimally invasive access has become the preferred choice in mitral and/or tricuspid valve surgery. Reported outcomes are at least similar to classic sternotomy although aortic cross-clamp times are usually longer.

METHODS
We analysed the largest registry of mitral and/or tricuspid valve surgery patients (mini-mitral international registry (MMIR)) for the relationship between aortic cross-clamp times, mortality and other outcomes. From 2015 to 2021, 7513 consecutive patients underwent mini-mitral and/or tricuspid valve surgery in 17 international Heart-Valve-Centres. Data were collected according to Mitral Valve Academic Research Consortium (MVARC) definitions and 6878 patients with 1 cross-clamp period were analysed. Uni- and multivariable regression analyses were used to assess outcomes in relation to aortic cross-clamp times.

RESULTS
Median age was 65 years (57% male). Median EuroSCORE II was 1.3% (Inpatient Quality Reporting (IQR): 0.80–2.63). Minimally invasive access was either by direct vision (28%), video-assisted (41%) or totally endoscopic/robotic (31%). Femoral cannulation was used in 93%. Three quarters were repairs with 17% additional tricuspid valve surgery and 19% Atrial Fibrillation (AF)-ablation. Cardiopulmonary bypass and cross-clamp times were 135 min (IQR: 107–173) and 85 min (IQR: 64–111), respectively. Postoperative events were death (1.6%), stroke (1.2%), bleeding requiring revision (6%), low cardiac output syndrome (3.5%) and acute kidney injury (6.2%, mainly stage I). Statistical analyses identified significant associations between cross-clamp time and mortality, low cardiac output syndrome and acute kidney injury (all P &lt; 0.001). Age, low ejection fraction and emergent surgery were risk factors, but variables of ‘increased complexity’ (redo, endocarditis, concomitant procedures) were not.

CONCLUSIONS
Aortic cross-clamp time is associated with mortality as well as postoperatively impaired cardiac and renal function. Thus, implementing measures to reduce cross-clamp time may improve outcomes.
Assessing the potential of mobile laser scanning for stand-level forest inventories in near-natural forests
Authors: Vatandaşlar Can , Seki Mehmet , Zeybek Mustafa 
Published: April 2023

Abstract
Recent advances in LiDAR sensors and robotic technologies have raised the question of whether handheld mobile laser scanning (HMLS) systems can allow for the performing of forest inventories (FIs) without the use of conventional ground measurement (CGM) techniques. However, the reliability of such an approach for forest planning applications, particularly in non-uniform forests under mountainous conditions, remains underexplored. This study aims to address these issues by assessing the accuracy of HMLS-derived data based on the calculation of basic forest attributes such as the number of trees, dominant height and basal area. To this end, near-natural forests of a national park (NE Türkiye) were surveyed using the HMLS and CGM techniques for a management plan renewal project. Taking CGM results as reference, we compared each forest attribute pair based on two datasets collected from 39 sample plots at the forest (landscape) scale. Diameter distributions and the influence of stand characteristics on HMLS data accuracy were also analyzed at the plot scale. The statistical results showed no significant difference between the two datasets for any investigated forest attributes (P &gt; 0.05). The most and the least accurately calculated attributes were quadratic mean diameter (root mean square error (RMSE) = 1.3 cm, 4.5 per cent) and stand volume (RMSE = 93.7 m3 ha−1, 16.4 per cent), respectively. The stand volume bias was minimal at the forest scale (15.65 m3 ha−1, 3.11 per cent), but the relative bias increased to 72.1 per cent in a mixed forest plot with many small and multiple-stemmed trees. On the other hand, a strong negative relationship was detected between stand maturation and estimation errors. The accuracy of HMLS data considerably improved with increased mean diameter, basal area and stand volume values. Eventually, we conclude that many forest attributes can be quantified using HMLS at an accuracy level required by forest planning and management-related decision making. However, there is still a need for CGM in FIs to capture qualitative attributes, such as species mix and stem quality.
Whole-genome analysis of recombinant inbred rice lines reveals a quantitative trait locus on chromosome 3 with genotype-by-environment interaction effects
Authors: Sakai Toshiyuki , Fujioka Tomoaki , Uemura Toyokazu , Saito Shinichi , Terauchi Ryohei , Abe Akira 
Published: April 2023

Abstract
Elucidating genotype-by-environment interactions is fundamental for understanding the interplay between genetic and environmental factors that shape complex traits in crops. Genotype-by-environment interactions are of practical importance, as they determine the performance of cultivars grown in different environments, prompting the need for an efficient approach for evaluating genotype-by-environment interactions. Here, we describe a method for genotype-by-environment detection that involves comparing linear mixed models. This method successfully detected genotype-by-environment interactions in rice (Oryza sativa) recombinant inbred lines grown at 3 locations. We identified a quantitative trait locus (QTL) on chromosome 3 that was associated with heading date, grain number, and leaf length. The effect of this QTL on plant growth–related traits varied with environmental conditions, indicating the presence of genotype-by-environment interactions. Therefore, our method enables a powerful genotype-by-environment detection pipeline that should facilitate the production of high-yielding crops in a given environment.
Current outcomes of SARS-CoV-2 Omicron variant infection in high-risk haematological patients treated early with antivirals
Authors: Aiello Tommaso-Francesco , Puerta-Alcalde Pedro , Chumbita Mariana , Lopera Carlos , Monzó Patricia , Cortes Albert , Fernández-Avilés Francesc , Suárez-Lledó María , Correa Juan , Ortiz-Maldonado Valentín , Cuesta Genoveva , Martinez-Cibrian Nuria , Esteve Jordi , Marcos Maria Ángeles , Mensa Josep , Soriano Alex , Garcia-Vidal Carolina 
Published: April 2023

Abstract

Objectives
We aimed to describe the clinical outcomes and duration of viral shedding in high-risk patients with haematological malignancies hospitalized with COVID-19 during Omicron variant predominance who received early treatment with antivirals.

Methods
We conducted a prospective observational study on high-risk haematological patients admitted in our hospital between December 2021 and March 2022. We performed detection techniques on viral subgenomic mRNAs until negative results were obtained to document active, prolonged viral replication.

Results
This analysis included 60 consecutive adults with high-risk haematological malignancies and COVID-19. All of these patients underwent early treatment with remdesivir. Thirty-two (53%) patients received combined antiviral strategies, with sotrovimab or hyperimmune plasma being added to remdesivir. The median length of viral replication—as measured by real-time RT-PCR and/or subgenomic RNA detection—was 20 (IQR 14–28) days. Prolonged viral replication (6 weeks after diagnosis) was documented in six (10%) patients. Only two patients had prolonged infection for more than 2 months. Overall mortality was 5%, whereas COVID-19-related mortality was 0%.

Conclusions
Current outcomes of high-risk patients with haematological malignancies hospitalized with COVID-19 during Omicron variant predminance are good with the use of early antiviral strategies. Persistent viral shedding is uncommon.
Mapping 3 procedure coding systems to the International Classification of Health Interventions (ICHI): coverage and challenges
Authors: Fung Kin Wah , Xu Julia , Ameye Filip , Burelle Lisa , MacNeil Janice 
Published: April 2023

Abstract

Objective
To study the coverage and challenges in mapping 3 national and international procedure coding systems to the International Classification of Health Interventions (ICHI).

Materials and Methods
We identified 300 commonly used codes each from SNOMED CT, ICD-10-PCS, and CCI (Canadian Classification of Health Interventions) and mapped them to ICHI. We evaluated the level of match at the ICHI stem code and Foundation Component levels. We used postcoordination (modification of existing codes by adding other codes) to improve matching. Failure analysis was done for cases where full representation was not achieved. We noted and categorized potential problems that we encountered in ICHI, which could affect the accuracy and consistency of mapping.

Results
Overall, among the 900 codes from the 3 sources, 286 (31.8%) had full match with ICHI stem codes, 222 (24.7%) had full match with Foundation entities, and 231 (25.7%) had full match with postcoordination. 143 codes (15.9%) could only be partially represented even with postcoordination. A small number of SNOMED CT and ICD-10-PCS codes (18 codes, 2% of total), could not be mapped because the source codes were underspecified. We noted 4 categories of problems in ICHI—redundancy, missing elements, modeling issues, and naming issues.

Conclusion
Using the full range of mapping options, at least three-quarters of the commonly used codes in each source system achieved a full match. For the purpose of international statistical reporting, full matching may not be an essential requirement. However, problems in ICHI that could result in suboptimal maps should be addressed.
Bowel volvulus in the chest after an esophagectomy: an uncommon type IV hiatal hernia
Authors: Ludena Danny , Camillo Rodolfo , Machry Mayara , Solis-Pazmino Paola 
Published: April 2023

AbstractTransverse colon volvulus is an uncommon cause of bowel obstruction. Moreover, a thoracic herniation into the thorax is still rare. An early diagnosis and treatment are critical to the patient since they can lead to bowel infarction, peritonitis and death. We reported a 55-year-old woman admitted to the emergency department at a hospital. She presented with severe abdominal pain, mainly in the epigastrium, associated with dyspnea, nausea and vomiting. An abdominal CT scan showed a large hiatal hernia in the thorax with signs of volvulus in the involved segment.
The diagnostic dilemma: Giant Mucocele of the appendix—challenging conventional thinking
Authors: Solis-Pazmino Paola , Cedillo Cynthia , Avila Augusta , Saldanha Luis Henrique , Doncatto Vitor , Hamaoui Mohamed 
Published: April 2023

AbstractThis article reports on a 76-year-old male patient diagnosed with a mucocele of the appendix. A mucocele of the appendix is a benign fluid-filled swelling caused by the accumulation of mucus in the appendix due to a blockage in its discharge route. The patient presented with symptoms of chronic constipation and rectal tenesmus and was diagnosed through physical examination, imaging studies and laboratory tests. The patient underwent an open ileocolectomy procedure to remove the affected appendix. The results of the histopathological analysis showed a confined low-grade appendiceal mucinous neoplasm. The overall survival rate after surgery for mucocele of the appendix is excellent, with a low recurrence rate.
Numerically studying the degeneracy problem in extreme finite-source microlensing events
Authors: Sajadian Sedighe 
Published: April 2023

ABSTRACTMost transit microlensing events due to very low mass lens objects suffer from extreme finite-source effects. While modelling their light curves, there is a known continuous degeneracy between their relevant lensing parameters, i.e. the source angular radius normalized to the angular Einstein radius ρ⋆, the Einstein crossing time tE, the lens impact parameter u0, the blending parameter, and the stellar apparent magnitude. In this work, I numerically study the origin of this degeneracy. I find that these light curves have five observational parameters (i.e. the baseline magnitude, the maximum deviation in the magnification factor, the full width at half-maximum $\rm {FWHM}=2 \mathit{ t}_{\rm {HM}}$, the deviation from a top-hat model, and the time of the maximum time derivative of microlensing light curves $T_{\rm {max}}=t_{\rm E}\sqrt{\rho _{\star }^{2}-u_{0}^{2}}$). For extreme finite-source microlensing events due to uniform source stars, we get tHM ≃ Tmax and the deviation from the top-hat model tends to zero, which both cause the known continuous degeneracy. When either ρ⋆ ≲ 10 or the limb-darkening effect is considerable, tHM and Tmax are two independent observational parameters. I use a numerical approach, i.e. random forests containing 100–120 decision trees, to study how these observational parameters are efficient in yielding the lensing parameters. These machine learning models find the mentioned five lensing parameters for finite-source microlensing events from uniform and limb-darkened source stars with the average R2-scores of 0.87 and 0.84, respectively. R2-score for evaluating the lens impact parameter gets worse on adding limb darkening, and for extracting the limb-darkening coefficient itself this score falls as low as 0.67.
Characterization of recurrence patterns and outcomes of medulloblastoma in adults: The University of Texas MD Anderson Cancer Center experience
Authors: Gregory Timothy A , Mastall Maximilian , Lin Heather , Hess Kenneth R , Yuan Ying , Martin-Bejarano Garcia Manuela , Fuller Gregory N , Alfaro Kristin D , Gule-Monroe Maria K , Huse Jason T , Khatua Soumen , Rao Ganesh , Sandberg David I , Wefel Jeffrey S , Yeboa Debra N , Paulino Arnold C , McGovern Susan L , Zaky Wafik , Mahajan Anita , Suki Dima , Weathers Shiao-Pei , Harrison Rebecca A , de Groot John F , Puduvalli Vinay K , Penas-Prado Marta , Majd Nazanin K 
Published: April 2023

Abstract

Background
Medulloblastoma in adults is rare and treatment decisions are largely driven from pediatric literature. We sought to characterize recurrent medulloblastoma in adults.

Methods
From a single-institution dataset of 200 adult patients diagnosed with medulloblastoma during 1978–2017, those with recurrence were analyzed for clinical features, treatment, and outcome.

Results
Of the 200 patients, 82 (41%) with median age of 29 years (18–59) had recurrence after a median follow-up time of 8.4 years (95% CI = 7.1, 10.3). Of these, 30 (37%) were standard-risk, 31 (38%) were high-risk, and 21 (26%) had unknown-risk diseases at the time of initial diagnosis. Forty-eight (58%) presented with recurrence outside the posterior fossa, of whom 35 (43%) had distant recurrence only. Median Progression-free survival (PFS) and OS from initial surgery were 33.5 and 62.4 months, respectively. Neither PFS nor OS from initial diagnosis differed between the standard-risk and high-risk groups in those who experience recurrence (P = .505 and .463, respectively). Median OS from first recurrence was 20.3 months, also with no difference between the standard-risk and high-risk groups (P = .518). Recurrences were treated with combinations of re-resection (20 patients; 25%), systemic chemotherapy (61 patients; 76%), radiation (29 patients; 36%), stem cell transplant (6 patients; 8%), and intrathecal chemotherapy (4 patients; 5%). Patients who received radiation at recurrence had better OS (32.9 months) than those who did not (19.2 months) (P = .034).

Conclusions
Recurrent medulloblastoma in adults has a poor prognosis irrespective of initial risk stratification. Recurrence commonly arises outside the posterior fossa years after initial diagnosis.