bluuebunny/crossref_metadata_2025_split huggingface dataset:
Quantifying sodium [18F]fluoride uptake in abdominal aortic aneurysms
Authors: Debono Samuel , Nash Jennifer , Fletcher Alexander J. , Syed Maaz B. J. , Semple Scott I. , van Beek Edwin J. R. , Fletcher Alison , Cadet Sebastien , Williams Michelle C. , Dey Damini , Slomka Piotr J. , Forsythe Rachael O. , Dweck Marc R. , Newby David E. 
Published: June 2022

Abstract
Background
Aortic microcalcification activity is a recently described method of measuring aortic sodium [18F]fluoride uptake in the thoracic aorta on positron emission tomography. In this study, we aimed to compare and to modify this method for use within the infrarenal aorta of patients with abdominal aortic aneurysms.

Methods
Twenty-five patients with abdominal aortic aneurysms underwent an sodium [18F]fluoride positron emission tomography and computed tomography scan. Maximum and mean tissue-to-background ratios (TBR) and abdominal aortic microcalcification activity were determined following application of a thresholding and variable radius method to correct for vertebral sodium [18F]fluoride signal spill-over and the nonlinear changes in aortic diameter, respectively. Agreement between the methods, and repeatability of these approaches were assessed.

Results
The aortic microcalcification activity method was much quicker to perform than the TBR method (14 versus 40 min, p < 0.001). There was moderate-to-good agreement between TBR and aortic microcalcification activity measurements for maximum (interclass correlation co-efficient, 0.67) and mean (interclass correlation co-efficient, 0.88) values. These correlations sequentially improved with the application of thresholding (intraclass correlation coefficient 0.93, 95% confidence interval 0.89–0.95) and variable diameter (intraclass correlation coefficient 0.97, 95% confidence interval 0.94–0.99) techniques. The optimised method had good intra-observer (mean 1.57 ± 0.42, bias 0.08, co-efficient of repeatability 0.36 and limits of agreement − 0.43 to 0.43) and inter-observer (mean 1.57 ± 0.42, bias 0.08, co-efficient of repeatability 0.47 and limits of agreement − 0.53 to 0.53) repeatability.

Conclusions
Aortic microcalcification activity is a quick and simple method which demonstrates good intra-observer and inter-observer repeatabilities and provides measures of sodium [18F]fluoride uptake that are comparable to established methods.
Single-cell RNA sequencing of mitotic-arrested prospermatogonia with DAZL::GFP chickens and revealing unique epigenetic reprogramming of chickens
Authors: Choi Hyeon Jeong , Jung Kyung Min , Rengaraj Deivendran , Lee Kyung Youn , Yoo Eunhui , Kim Tae Hyun , Han Jae Yong 
Published: June 2022

Abstract
Background
Germ cell mitotic arrest is conserved in many vertebrates, including birds, although the time of entry or exit into quiescence phase differs. Mitotic arrest is essential for the normal differentiation of male germ cells into spermatogonia and accompanies epigenetic reprogramming and meiosis inhibition from embryonic development to post-hatch. However, mitotic arrest was not well studied in chickens because of the difficulty in obtaining pure germ cells from relevant developmental stage.

Results
We performed single-cell RNA sequencing to investigate transcriptional dynamics of male germ cells during mitotic arrest in DAZL::GFP chickens. Using differentially expressed gene analysis and K-means clustering to analyze cells at different developmental stages (E12, E16, and hatch), we found that metabolic and signaling pathways were regulated, and that the epigenome was reprogrammed during mitotic arrest. In particular, we found that histone H3K9 and H3K14 acetylation (by HDAC2) and DNA demethylation (by DNMT3B and HELLS) led to a transcriptionally permissive chromatin state. Furthermore, we found that global DNA demethylation occurred gradually after the onset of mitotic arrest, indicating that the epigenetic-reprogramming schedule of the chicken genome differs from that of the mammalian genome. DNA hypomethylation persisted after hatching, and methylation was slowly re-established 3 weeks later.

Conclusions
We found a unique epigenetic-reprogramming schedule of mitotic-arrested chicken prospermatogonia and prolonged hypomethylation after hatching. This will provide a foundation for understanding the process of germ-cell epigenetic regulation in several species for which this process is not clearly described. Our findings on the biological processes related to sex-specific differentiation of prospermatogonia could help studying germline development in vitro more elaborately.
Developing a desktop application for drug-drug interaction checker ordered for chronic diseases in Ethiopian hospitals pharmacy
Authors: Lingaiah Thamineni Bheema , Belay Yibeltal Andarge , Dese Kokeb 
Published: June 2022

Abstract
Background
Drug-drug interactions are a major cause of morbidity worldwide and are a leading source of treatment inefficacy. They are classified based on their pharmacological action on the body as major, moderate, and minor. Currently, it is a tedious process to remember the drug-drug interactions by the pharmacist during dispensing of the prescribed drugs for the patients. Therefore, there is a need for technology that assists the pharmacist in checking the drug-drug interaction for prescribed drugs. Therefore, in this work, a desktop-based application that can automatically identify the drug-drug interactions for prescribed drugs that could operate offline for those found in low-resource setting hospitals has been developed. To do this, around 3000 drugs along with their major and moderate interaction points were collected from Ethiopian Pharmaceutical Supply Agency. The developed system included two main parts; the database part that comprises all the drugs collected along with their major and moderate interaction points, and a patient registration platform to register the patients' history. The system was developed by using C sharp programing language.

Results
The developed system has both drug-drug interaction checking as well as patient registration platform. Registration of the patient’s history will be done by the pharmacist and during dispensing of the drugs to the patient, the developed system will check the interaction between the drugs prescribed. The system was tested to operate the above functions, and finally, it was able to display the major and moderate interaction points of all inserted drugs automatically and accurately. For those drugs which have no either major or moderate interaction, the system was displayed as ‘unknown’.

Conclusions
The developed system assisted the pharmacist in knowing the drug-drug interaction, and enabled the patients for the resubscription of drugs with the same functional. The system would help to increase the efficiency of the pharmacist in low resource settings to do their tasks without any difficulty, and tiredness. In the future, it is recommended to include all drugs for all disease types rather than focusing only on chronic disease drugs.
Surrogate model for optimizing annealing duration of self-assembled membrane-cavity structures
Authors: Jeong Mun Goung , Kim Taeyeong , Lee Bong Jae , Lee Jungchul 
Published: June 2022

AbstractWe propose a scheme to establish a surrogate model for optimizing the annealing duration of the self-assembled membrane-cavity structures from hole patterned silicon wafers. Although it has been reported that the design space of post-annealing shape can be extended by increasing the dimensions of hole arrays, the annealing duration for large hole arrays has not been well examined. A two-dimensional axisymmetric phase-field model in commercial FEM software is employed to establish the surrogate model with respect to three variables (i.e., radius, aspect ratio (AR), and normalized spacing). The established surrogate model based on the neural network indicates that the hole radius dominantly affects annealing duration and the temperature elevation (i.e., acceleration of diffusion speed) is necessary to achieve the practical annealing duration when the hole radius is larger than 1 μm.
A modular 3D printed microfluidic system: a potential solution for continuous cell harvesting in large-scale bioprocessing
Authors: Ding Lin , Razavi Bazaz Sajad , Asadniaye Fardjahromi Mahsa , McKinnirey Flyn , Saputro Brian , Banerjee Balarka , Vesey Graham , Ebrahimi Warkiani Majid 
Published: June 2022

AbstractMicrofluidic devices have shown promising applications in the bioprocessing industry. However, the lack of modularity and high cost of testing and error limit their implementation in the industry. Advances in 3D printing technologies have facilitated the conversion of microfluidic devices from research output to applicable industrial systems. Here, for the first time, we presented a 3D printed modular microfluidic system consisting of two micromixers, one spiral microfluidic separator, and one microfluidic concentrator. We showed that this system can detach and separate mesenchymal stem cells (MSCs) from microcarriers (MCs) in a short time while maintaining the cell’s viability and functionality. The system can be multiplexed and scaled up to process large volumes of the industry. Importantly, this system is a closed system with no human intervention and is promising for current good manufacturing practices.
Graphical Abstract
Platelet-rich plasma alone is unable to trigger contact osteogenesis on titanium implant surfaces
Authors: Kim Ung-Gyu , Choi Jung-You , Lee Jun-Beom , Yeo In-Sung Luke 
Published: June 2022

Abstract
Purpose
Osseointegration consists of bidirectional bone formation around modified implant surfaces by contact osteogenesis and distance osteogenesis. This study tested whether contact osteogenesis on the surface of a modified titanium (Ti) implant is stimulated by cytokines in the blood.

Methods
In the first two types of experiments, sandblasted, large-grit, acid-etched Ti implants and turned Ti tubes were inserted into rabbit tibiae. To exclude the influence of distance osteogenesis, the tubes were inserted into the tibiae, and implants were placed inside the tubes. In a third type of experiment, the implants and tubes were inserted into the rabbit tibiae, and platelet-rich plasma (PRP) or recombinant human bone morphogenetic protein-2 (rhBMP-2) was applied topically. Four weeks after implantation, undecalcified specimens were prepared for histomorphometry. Bone-to-implant contact (BIC) and bone area per tissue (BA) were measured, and the data were analysed using one-way ANOVA at a significance level of 0.05.

Results
When the response of bone to Ti tubes with implants was compared to that without implants (first experiment), little bone formation was found inside the tubes. The mean BIC of implant specimens inside the tubes was 21.41 ± 13.81% in a second experiment that evaluated bone responses to implants with or without Ti tubes. This mean BIC value was significantly lower than that in the implant-only group (without tubes) (47.32 ± 12.09%, P = 0.030). The third experiment showed that rhBMP-2 significantly increased contact osteogenesis on the implant surface, whereas PRP had no effect (mean BIC: 66.53 ± 14.06% vs. 16.34 ± 15.98%, P = 0.004).

Conclusions
Platelet-rich plasma alone is unable to trigger contact osteogenesis on the modified titanium implant surface.
Biocontrol of Cymbalophora rivularis (Menetries) (Lepidoptera: Erebidae) larvae by entomopathogenic bacteria and fungi
Authors: Tozlu Elif , Tozlu Göksel , Kotan Recep 
Published: June 2022

Abstract
Background
Sainfoin, alfalfa and clover are important forage crop plants in terms of their food value, efficiency and adaptation capabilities. Cymbalophora rivularis (Menetries, 1832) (Lepidoptera: Erebidae) causes significant damage to these plants. Chemicals are not recommended for pest control. Cultural pest control practices also remain insufficient. In this study, which was conducted to determine whether biological control can be applied in pest control, the pathogenic effects of Pseudomonas putida K-19B, Pantoea agglomerans RK-79 and RK-92, Bacillus megaterium TV-3D, P. fluorescens RK-1979, B. pumilus RK-1980 bacterial strains at a concentration of 1 × 108 CFU/ml and Beauveria bassiana (Bals.-Criv.) Vuill. (Cordycipitaceae) ET 10 fungal isolate at a concentration of 5.7 × 105 conidia/ml were tested under controlled conditions.

Results
According to the results of this study, at the end of 216 h, the tested biological control agent showed an efficacy ranged from 43.33 to 96.67% in the 1st and 2nd larval instars and 70 to 95% in the last instar larvae of C. rivularis. In the case of applications to 1st and 2nd larval instars, after 216 h, the efficacy of ET 10 fungal isolate was 96.67 and 83.33% of K-19B bacterial strain. In the last instar larvae, after 216 h, the efficacy of the strains TV-3D, K-19B and RK-1979 was 95, 90 and 90%, respectively. The efficacy of ET 10 and K-19B applications was found to be statistically not different from the efficacy of pathogenic application.

Conclusion
Environmentally friendly P. putida and B. megaterium bacterial strains and B. bassiana fungal isolate were determined and can be successfully used in the biological control of this pest.
Withdrawal seizures vs on-medication seizures: an intracranial EEG recording case report
Authors: Khateb Mohamed , Grinfeld Anat , Weiler-Sagie Michal , Herskovitz Moshe 
Published: June 2022

Abstract
Background
It has long been an interesting question of whether withdrawal seizures in epileptic patients differ from habitual seizures in terms of semiology and electrophysiology.

Case presentation
Here, we addressed this issue in a 40 year-old woman with drug-resistant focal epilepsy monitored by presurgical intracranial EEG. As a part of this routine pre-operative investigation, anti-seizure medications (ASMs) were halted; as a result, multiple withdrawal seizures were recorded before ASM readministration. During 4 days of invasive monitoring, we noticed three different phases in seizure organization: Acute withdrawal seizure (AWS): The first recorded seizure 10h after the implantation; the stabilized withdrawal seizures (SWS): seven habitual seizures recorded from 24h post implantation to readministration of ASMs; and the Non-withdrawal seizures (NWS): ten seizures recorded 24h after readministration of ASMs. AWS and SWS had the same semiology and same epileptic network, but the propagation time from the temporal pole to the para-hippocampal gyrus (PHG) and hippocampus ranged from no latency in AWS to up to 50 s in SWS. NWS were electrographic seizures, without any apparent clinical manifestation. Seizure onset in this type of seizure, as in the first two types, was in the temporal pole. However, NWS could last up to 3 min without involving the PHG or hippocampus.

Conclusions
We concluded that in acute withdrawal seizures the propagation time of epileptic activity is significantly reduced without affecting ictal organization network or semiology. Furthermore, ASM in this case had a remarkable influence on propagation rather than initiation of epileptic activity.
The frequency of pulmonary hypertension in chronic obstructive pulmonary disease of geriatric patients: a narrative literature review
Authors: Luca Ecaterina , Bodrug Nicolae 
Published: June 2022

Abstract
Background
Pulmonary hypertension (PH) is a serious complication with complex pathogenesis in the natural history of chronic obstructive pulmonary disease COPD, with a progressively increasing frequency with a meanwhile decreasing in functional capacity.

Purpose
Assessment of the incidence, pathogenesis, peculiarities, and complications of PH in COPD in geriatric population worldwide.

Methods
We performed an analysis of randomized, retrospective, and prospective clinical, case-control and observational studies, published at the international level, according to the subject studied and target population. Four hundred ninety-seven full articles were identified after the search through engine Google Search and databases PubMed, Hinari, SpringerLink, and Scopus (Elsevier) according to the keywords and subsequent filters.

Results
Depending on various factors, like the population examined, the definition used for mPAP (mPAP> 20 mm Hg or ≥25 mm Hg), the severity of the lung disease, and the method of measuring PAP, a varied incidence of COPD patients with PH complication was discovered, namely 10–91%. PH prevalence increases with the COPD severity. The presence of PH is associated with acute exacerbations of COPD, reduced survival, and increasing expenses for healthcare programs. Mild to moderate levels of PH (mPAP 25–34 mm Hg) are relatively common in COPD and usually are associated with severe airflow obstruction or parenchymal destruction. Only a minority of patients (1–5%) have severe PH (mPAP ≥35 mm Hg).

Conclusions
Diagnosis of PH in COPD is difficult, especially in a mild form, and requires a clinical approach associated with a comprehensive set of investigations for confirming the etiology, evaluation of the functional and hemodynamical impairment severity, and important factors in the appropriate treatment election.
Quantitative analysis of paleoenvironment of Qingshankou Formation in northern Songliao Basin, Northeastern China
Authors: Fu Xiuli , Meng Qi’an , Bai Yue , Su Yangxin , Jin Mingyu , Huo Zhengwang , Li Hongxia , Cui Kunning , Xu Qingxia , Zhu Zhengmao , Cao Weifu , Jia Qiong 
Published: June 2022

The Qingshankou Formation in the Songliao Basin of northeastern China is an important layer for unconventional oil exploration. To solve the problem of the main controlling factors of shale oil enrichment, to quantitatively analyze the paleosalinity, paleoclimate, paleoredox environment, provenance, and lake productivity, and to clarify the relationship between sedimentary environment and total organic carbon, we have analyzed quantitative reconstruction of the sedimentary environment by using comprehensive analysis of multiple indicators with major and trace elements, fossils, and biomarkers. The results are as follows: the paleosalinity index w(Sr)/ w(Ba) ratio is 0.4–4, the w(B)/ w(Ga) value is 0.7–8.5, and the w(Pr)/ w(Ph) value is 0.8–2.8, which mainly stand for fresh brackish to saline water. The paleoclimate CIW′ (Chemical index of weathering, CIW = [A12O3/(AI203 + CaO+Na20)] × 100 [molecular proportions]) value is 90–100, indicating a warm and humid climate. The redox index w(V)/ w((V + Ni)) value is 0.54–0.89, which mainly belongs to the dysoxic environment. The provenance input of terrigenous debris index w(Ti)/ w(Al) value is 0.026–0.034, mainly standing for low terrigenous debris input. The production index CAL (enrichment degree of Cu) value is 1–3, belonging to high production. We conclude that the humid climate, the fresh brackish to saline and dysoxic water, and the high lake production provide favorable geologic conditions for biological reproduction and then provide a foundation for the formation, enrichment, and preservation of organic matter. The quantitative reconstruction of the paleoenvironment of the Qingshankou Formation has theoretical significance for Gulong shale oil exploration and development.
Minimal residual disease comparison between Ig/TCR PCR versus NGS assays in children with Philadelphia chromosome-positive acute lymphoblastic leukemia: A report from the COG AALL1631 study.
Authors: Tran Thai Hoa , Reshmi Shalini , Kirsch Ilan Richard , Kairalla John A. , Tasian Sarah K , Schultz Kirk R. , Raetz Elizabeth A. , Shago Mary , Carroll Andrew J. , Devidas Meenakshi , Hunger Stephen , Loh Mignon L. , Silverman Lewis B. 
Published: June 2022

10023 Background: Minimal residual disease (MRD) assessment by immunoglobulin/T-cell receptor (Ig/TCR) polymerase chain reaction (PCR) is currently being used in the international pediatric Philadelphia chromosome-positive acute lymphoblastic leukemia (Ph+ALL) trial EsPhALL2017/AALL1631 for risk stratification. MRD concordance has previously been demonstrated between Ig/TCR PCR and flow cytometry in Ph+ALL. We sought to assess concordance of MRD assessment between conventional Ig/TCR PCR and next-generation sequencing (NGS) assays. Methods: MRD was assessed in all pts on AALL1631 by Ig/TCR PCR at end-induction IB; those with MRD <5x10-4 were classified as standard-risk (SR) and randomized to treatment with imatinib and one of two chemotherapy regimens without hematopoietic stem cell transplant (HSCT), whereas pts with end-induction 1B MRD ≥ 5x10-4 were considered high-risk (HR) and assigned to HSCT after consolidation chemotherapy. Residual diagnostic and end-induction IB samples from consenting pts were assessed for NGS MRD by the clonoSEQ assay (Adaptive Biotechnologies) in blinded fashion and subsequently compared to Ig/TCR MRD to determine concordance as related to MRD-based HSCT recommendations ( ie, MRD ≥ 5x10-4 consistent with HR group assignment). MRD values were calculated using the kappa statistic for agreement above chance. Results: Sixty-seven pts had matched samples available for MRD assessment at end-induction 1B by both Ig/TCR PCR and NGS (Table). NGS MRD was evaluable for all 67 pts and stratified as 62 SR (<5x10-4) and 5 HR (≥5x10-4). In contrast, Ig/TCR PCR results were inevaluable for 3 pts (unsatisfactory sample quality) and indeterminate (positive, but not quantifiable) in 4 pts. Of the remaining 60 pts, 55 met SR and 5 HR criteria using Ig/TCR PCR. There was only 1 discordant case between the two methods for MRD-based HSCT recommendation among these 60 pts with a kappa statistic for agreement above chance of 0.88. Conclusions: NGS and Ig/TCR PCR assays were highly concordant in MRD assessment for risk stratification at a threshold of 5x10-4 in pediatric pts with Ph+ALL enrolled on AALL1631. Of note, the NGS assay yielded MRD results amenable for risk stratification in 100% pts compared to 89.6% for the Ig/TCR PCR methodology. These data support the use of NGS MRD testing for risk stratification in pediatric Ph+ALL.[Table: see text]