bluuebunny/crossref_metadata_2025_split huggingface dataset:
Rabbit targeted genomic sequences after heterologous hybridization using human exome
Authors: Iannuccelli Nathalie , Sarry Julien , Billon Yvon , Aymard Patrick , Helies Virginie , Cabau Cédric , Donnadieu Cécile , Demars Julie 
Published: August 2022

Abstract
Objective
Causal mutations for major genes that underlie a broad range of morphological traits are often located within exons of genes that then affect protein functions. Non-model organism genetic studies are not easy to perform due to the lack of genome-wide molecular tools such as SNP genotyping array. Genotyping-By-Sequencing (GBS) methods offer an alternative. Consequently, we used this approach that is focused on the exome to target and identify major genes in rabbit populations.
Data description
We used a heterologous enrichment method before sequencing, allowing us to capture the rabbit exome using the marketed human panel since mammal protein coding genes are well conserved across the phylogenic tree of species. This targeted strategy was performed on 52 French rabbits from 5 different French strains (Californian, New-Zealand, Castor, Chinchilla and Laghmere). We generated 3.4 billion sequencing reads and approximately 29–140 million of reads per DNA sample. The expected exome coverage per sample ranged between 118 and 566X.
The present dataset could be useful for the scientific community working on rabbit species in order to (i) improve the annotation of the rabbit reference genome Oryctolagus cuniculus (OryCun2.0), (ii) enrich the characterization of polymorphisms segregating in rabbits and (iii) evaluate the genetic biodiversity in different rabbit strains.
Raw sequences were deposited in the European Nucleotide Archive (ENA) at the European Molecular Biology Laboratory- European Bioinformatics Institute (EMBL-EBI) data portal under bioproject accession number PRJEB37917.
Long-term cost-effectiveness of quality of diabetes care; experiences from private and public diabetes centers in Iran
Authors: Shahtaheri Rahill Sadat , Bayazidi Yahya , Davari Majid , Kebriaeezadeh Abbas , Yousefi Sepideh , Hezaveh Alireza Mahdavi , Sadeghi Abolfazl , aL Lami Ahmed Hayder Mohsin , Abbasian Hadi 
Published: August 2022

Abstract
Background
The quality of health care has a significant impact on both patients and the health system in terms of long-term costs and health consequences. This study focuses on determining the long-term cost-effectiveness in quality of diabetes care in two different settings (private/public) using longitudinal patient-level data in Iran.

Methods
By extracting patients intermediate biomedical markers in under-treatment type 2 diabetes patients(T2DP) in a longitudinal retrospective study and by applying the localized UKPDS diabetes model, lifetime health outcomes including life expectancy, quality-adjusted Life expectancy (QALE) and direct medical costs of managing disease and related complications from a healthcare system perspective was predicted. Costs and utility decrements had derived on under-treatment T2DP from 7 private and 8 Public diabetes centers. We applied two steps sampling mehods to recruit the needed sample size (cluster and random sampling). To cope with first and second-order uncertainty, we used Monte-Carlo simulation and bootstrapping techniques. Both cost and utility variables were discounted by 3% in the base model.

Results
In a 20-year time horizon, according to over 5 years of quality of care data, outcomes-driven in the private sector will be more effective and more costly (5.17 vs. 4.95 QALE and 15,385 vs. 8092). The incremental cost-effectiveness ratio (ICER) was $33,148.02 per QALE gained, which was higher than the national threshold.

Conclusion
Although quality of care in private diabetes centers resulted in a slight increase in the life expectancy in T2DM patients, it is associated with unfavorable costs, too. Private-sector in management of T2DM patients, compared with public (governmental) diabetic Centers, is unlikely to be cost-effective in Iran.
Establishing priorities for diabetes action goals according to key opinion leaders and health professionals
Authors: Zelnik Yovel Dana , Tamir Orly , Lavon Elza , Kolobov Tanya , Bel-Ange Anat , Julius Michal , Raz Itamar , Rapoport Micha 
Published: August 2022

Abstract
Background
The ever-increasing burden of diabetes and the limited resources highlight the need for prioritization of national action goals for diabetes management. The Israeli National Diabetes Council (INDC) initiated a prioritization process aiming to set a top list of diabetes related goals, as suggested by decision makers and health professionals.

Methods
A 2-step prioritization process, including a small (n = 32) circle of key opinion leaders of the INDC and a larger (n = 195) nationwide circle of diabetes health professionals consisting of physicians, nurses, and dieticians working in diabetes care centers, hospitals and family practice clinics, was established. An online questionnaire presenting 45 different action areas in diabetes prevention and care was distributed to the INDC members who ranked the 3 top diabetes priorities based on their individual interpretation of importance and applicability. The 7 highest ranking priorities were later presented to hospital-based and community diabetes health professionals. These professionals selected the 3 top priorities, based on their perceived importance.

Results
Council members opted mostly for action areas regarding specific populations, such as clinics for adult type-1 diabetes patients, diabetic foot, and pediatric and adolescent patients, while the health professionals’ top priorities were mostly in the general field of prevention, namely high-risk prediabetes population, prevention of obesity, and promotion of healthy life-style. In addition, priorities differed between hospital and community health professionals as well as between different professional groups.

Conclusions
A national prioritization process of action areas in diabetes prevention and care is attainable. The resulting item list is affected by professional considerations. These priorities may direct efforts in the implementation of interventions to improve national-level diabetes management.
A new polarization direction measurement via local Radon transform and error correction
Authors: Wang Wei , Gao Chao , Yan Xingwei , Shi Jianhua 
Published: August 2022

AbstractVectorial optical field-based spatially polarization modulation has been widely studied for polarization measurement due to its simple system structure. In this system, the polarization information is encoded in the irradiance image, and polarization measurement can be realized by image processing. The classical image processing methods could not meet the increasing demand of practical applications due to their poor computational efficiency. To address this issue, a new image processing method, combining the rapidity of local radon transform (LRT) and the precision of error correction (EC), was proposed in this paper. Firstly, the polarization direction of the light was coarsely estimated from pixels on several circles. Then, the LRT of the input image was completed while the coarsely estimated direction was the center angle for LRT. Finally, the EC was conducted to get the accurate direction depending on the quantitative link between the error of the coarse estimation and the correlation between the LRTs. Experiments on synthetic and real data demonstrate that, compared to the other state-of-the-art methods, our proposed algorithm is more robust and less time-consuming.
Common fixed-point results of fuzzy mappings and applications on stochastic Volterra integral equations
Authors: Kanwal Shazia , Shagari Mohammed Shehu , Aydi Hassen , Mukheimer Aiman , Abdeljawad Thabet 
Published: August 2022

AbstractThe objective of the present research is to establish and prove some new common fuzzy fixed-point theorems for fuzzy set-valued mappings involving Θ-contractions in a complete metric space. For this purpose, a novel integral-type contraction condition is applied to obtain these results. In this way, several useful and classical results have been generalized. Moreover, a concrete example is created to furnish our results. An application to stochastic Volterra integral equations has been given to enhance the validity of our results.
CONTAIN4n6: a systematic evaluation of container artifacts
Authors: Mishra Anand K. , Pilli Emmanuel S. , Govil Mahesh C. 
Published: August 2022

AbstractA container provides an environment where applications are packaged and run with the supporting libraries and dependencies. Due to scalability and efficient software deployment, the popularity of container technology has increased and its services are also available on cloud platforms. The container environment is prone to a variety of threats and vulnerabilities that lead to security breaches and attacks. Investigation is required to analyze the attack and the digital forensics processes have also been implemented in the container environment. In this paper, we present a systematic evaluation of container artifacts. An interface named CONTAIN4n6 is developed to collect data from container environment that extracts the data using introspection libraries, container file systems, and is also capable to trace the system call of running container. The functionality of system calls traces is implemented in an open source containerization software, i.e, Moby project. Container’s artifacts are associated with environmental information, log files, directories, link files, repositories, etc. Data collected from multiple sources are stored in a database and created a hash values to maintain the integrity of collected data. A case study of privilege escalation attacks has been demonstrated which is used to validate the data collection tool, called, CONTAIN4n6. Research challenges associated with security and forensic investigations on containerized applications are also presented.
Prehabilitation in high-risk patients scheduled for major abdominal cancer surgery: a feasibility study
Authors: Waterland Jamie L. , Ismail Hilmy , Granger Catherine L. , Patrick Cameron , Denehy Linda , Riedel Bernhard ,   on behalf of the Centre for Prehabilitation and Perioperative Care, Beaumont Anna , Bruns Emma , Burbury Kate , Carty Danika , Chahal Rani , Christelis Georgina , Coleman Sonia , Crowe Jessica , Edbrooke Lara , Fairweather Melanie , Ftanou Maria , Graham Kate , Hall Travis , Harrison Simon , Heriot Alexander , Karabiyik Yesim , Kenchington Kay , Khot Amit , Kotowicz Erika , Lawrance Naomi , Leung Debra , Liu Iris , Loeliger Jenelle , Lynch Fiona , Martin Alicia , Norman Jamie , O’Brien Kat , Poulton Tom , Prickett Christina , Richardson Ian , Sinton Catherine , Siu Amanda , Traer Emily , Traill Anya 
Published: August 2022

Abstract
Background
Patients presenting for major surgery with low cardiorespiratory fitness (deconditioning) and other modifiable risk factors are at increased risk of postoperative complications. This study investigated the feasibility of delivering prehabilitation in high-risk patients scheduled for major abdominal cancer surgery.

Methods
Eligible patients in this single-center cohort study included patients with poor fitness (objectively assessed by cardiopulmonary exercise testing, CPET) scheduled for elective major abdominal cancer surgery. Patients were recruited to participate in a prehabilitation program that spanned up to 6 weeks pre-operatively and comprised aerobic and resistance exercise training, breathing exercise, and nutritional support. The primary outcome assessed pre-specified feasibility targets: recruitment >70%, retention >85%, and intervention adherence >70%. Secondary outcomes were assessed for improved pre-operative functional status and health-related quality of life and for postoperative complications.

Results
Eighty-two (34%) out of 238 patients screened between April 2018 and December 2019 were eligible for recruitment. Fifty (61%) patients (52% males) with a median age of 71 (IQR, 63–77) years participated in the study. Baseline oxygen consumption the at anaerobic threshold and at peak exercise (mean±SD: 9.8±1.8 and 14.0±2.9 mL/kg/min, respectively) confirmed the deconditioned state of the study cohort. The retention rate within the prehabilitation program was 84%, with 42 participants returning for repeat CPET testing. While >60% of participants preferred to do home-based prehabilitation, adherence to the intervention was low—with only 12 (28%) and 15 (35%) of patients having self-reported compliance >70% with their exercise prescriptions.

Conclusion
Our prehabilitation program in high-risk cancer surgery patients did not achieve pre-specified targets for recruitment, retention, and self-reported program adherence. These findings underpin the importance of implementation research and strategies for the prehabilitation programs in major surgery.

Trial registration
Australian New Zealand Clinical Trials Registry (ACTRN12620000073909) retrospectively registered.
In-hospital mortality of patients requiring unplanned postoperative ventilatory support: a multicenter observational study
Authors: Magor Ron , Dabush-Elisha Inbal , Aviram Daniel , Karol Dana , Syn-Hershko Adi , Schvartz Reut , Cohen Barak , Matot Idit 
Published: August 2022

Abstract
Background
Most patients who are admitted non-intubated to surgery are extubated at surgery conclusion. Yet, 1–2% require unplanned postoperative ventilatory support. The outcome of these patients has not been thoroughly evaluated to date and is the focus of the present study.

Methods
Two-center observational study assessing characteristics and outcomes of surgical patients with unplanned mechanical ventilation during PACU stay between 2017 and 2019. Patients who arrived intubated to the operating room or were transferred directly to the intensive care unit (ICU) were excluded. The co-primary aims were to assess overall in-hospital mortality and to compare mortality between patients who were extubated in PACU and those who were discharged from PACU still intubated. The secondary aims were to compare postoperative respiratory infection and unplanned admissions to the ICU. Multivariate logistic regression was used to compare the groups and adjust for potential confounding variables.

Results
Overall, 698 patients were included. Of these, 135 died during hospital stay (mortality rate 19.3%, compared with 1.0% overall postoperative in-hospital mortality). Patients who still required ventilatory support at PACU discharge were significantly sicker, majority needed emergency surgery, and had more complicated surgical course compared to those who were extubated in PACU. In addition, their mortality rate [36% vs. 9%, adjusted OR (95% CI) 5.8 (3.8–8.8), p < 0.001], postoperative respiratory infection, and unplanned admission to ICU rates were also significantly higher.

Conclusion
Unplanned postoperative mechanical ventilation is associated with noteworthy morbidity and mortality, with significantly higher rates in those of need for protracted (vs. short) mechanical ventilation. The remarkable mortality rate in patients extubated shortly after arriving to the PACU emphasizes the need for further studies to explore prompting factors and whether we can intervene to improve patients’ outcome.
Circ_0026359 induces HOXA9 to regulate gastric cancer malignant progression through miR-140-3p
Authors: Lu Shuirong , Lu Jinlai , Liu Lang , Sun Yilong , Zhao Yixuan , Tan Xi , Li Jingze 
Published: August 2022

AbstractRecent researches indicate the key role of circRNA in gastric cancer (GC) progression. However, the role of circ_0026359 in GC progression remains unclear. This study aims to analyze the role of circ_0026359 in GC development and the underlying mechanism. The results showed that compared with controls, GC tissues and cells displayed high circ_0026359 and HOXA9 expression, and low miR-140-3p expression. Depletion of circ_0026359 repressed cell proliferation, migration, invasion and glycolysis, and induced cell apoptosis. Circ_0026359 knockdown inhibited neoplasm growth in vivo. Under-expression of miR-140-3p, a target miRNA of circ_0026359, relieved the effects of circ_0026359 knockdown on GC progression. Additionally, HOXA9 was regulated by the circ_0026359/miR-140-3p axis. Thus, circ_0026359 absence inhibited GC progression by miR-140-3p/HOXA9 pathway, which provided an effective therapeutic target for GC.
A satellite-linked tag for the long-term monitoring of diving behavior in large whales
Authors: Palacios Daniel M. , Irvine Ladd M. , Lagerquist Barbara A. , Fahlbusch James A. , Calambokidis John , Tomkiewicz Stanley M. , Mate Bruce R. 
Published: August 2022

AbstractDespite spending most time underwater, the technology in use to track whales over large geographic ranges via satellite has been largely limited to locational data, with most applications focusing on characterizing their horizontal movements. We describe the development of the RDW tag, a new Argos-based satellite telemetry device that incorporates sensors for monitoring the movements and dive behavior of large whales over several months without requiring recovery. Based on an implantable design, the tag features a saltwater conductivity switch, a tri-axial accelerometer, and an optional pressure transducer, along with onboard software for data processing and detection of behavioral events or activities of interest for transmission. We configured the software to detect dives and create per-dive summaries describing behavioral events associated with feeding activities in rorqual whales. We conducted a validation by proxy of the dive summary and event detection algorithms using field data from a medium-duration archival tag. We also conducted a simulation exercise to examine how the expected data recovery would vary under different dive behavior scenarios and compared those results to empirical values from field deployments of the RDW tag on blue (Balaenoptera musculus) and humpback (Megaptera novaeangliae) whales. The dive summary algorithm accurately reported dive depth and duration, while the accuracy of the lunge-feeding event detection algorithm was dependent on the precision of the accelerometer data that was used, with a predicted accuracy of 0.74 for correctly classifying feeding dives from 1/64-G precision data and 0.95 from 1-mG precision data. Simulated data recovery was lower with sparser transmission schedules, shorter mean dive durations, and lower rates of successfully received transmissions. Empirical data recovery was lower than expected from the simulation, suggesting the effect of additional factors, such as data gaps. By measuring key aspects of the per-dive behavior of large whales over multi-month timescales of movement, the RDW tags provide the ability to monitor previously unobservable behaviors across entire geographic ranges, extending the applications of satellite telemetry devices to new areas of whale physiology, behavior, ecology, and conservation.
YAP1-MAML2 fusion in a pediatric NF2-wildtype intraparenchymal brainstem schwannoma
Authors: Karajannis Matthias A. , Li Bryan K. , Souweidane Mark M. , Liechty Benjamin , Yao JinJuan , Benhamida Jamal K. , Bale Tejus A. , Rosenblum Marc K. 
Published: August 2022

AbstractBiallelic inactivation of NF2 represents the primary or sole oncogenic driver event in the vast majority of schwannomas. We report on a four-year-old female who underwent subtotal resection of a right medullary intraparenchymal schwannoma. RNA sequencing revealed an in-frame fusion between exon 5 of YAP1 and exon 2 of MAML2. YAP1-MAML2 fusions have previously been reported in a variety of tumor types, but not schwannomas. Our report expands the spectrum of oncogenic YAP1 gene fusions an alternative to NF2 inactivation to include sporadic schwannoma, analogous to what has recently been described in NF2-wildtype pediatric meningiomas. Appropriate somatic and germline molecular testing should be undertaken in all young patients with solitary schwannoma and meningioma given the high prevalence of an underlying tumor predisposition syndrome. In such patients, the identification of a somatic non-NF2 driver alteration such as this newly described YAP1 fusion, can help ascertain the diagnosis of a sporadic schwannoma.
Human induced pluripotent stem cell engineering establishes a humanized mouse platform for pediatric low-grade glioma modeling
Authors: Anastasaki Corina , Chatterjee Jit , Cobb Olivia , Sanapala Shilpa , Scheaffer Suzanne M. , De Andrade Costa Amanda , Wilson Anna F. , Kernan Chloe M. , Zafar Ameera H. , Ge Xia , Garbow Joel R. , Rodriguez Fausto J. , Gutmann David H. 
Published: August 2022

AbstractA major obstacle to identifying improved treatments for pediatric low-grade brain tumors (gliomas) is the inability to reproducibly generate human xenografts. To surmount this barrier, we leveraged human induced pluripotent stem cell (hiPSC) engineering to generate low-grade gliomas (LGGs) harboring the two most common pediatric pilocytic astrocytoma-associated molecular alterations, NF1 loss and KIAA1549:BRAF fusion. Herein, we identified that hiPSC-derived neuroglial progenitor populations (neural progenitors, glial restricted progenitors and oligodendrocyte progenitors), but not terminally differentiated astrocytes, give rise to tumors retaining LGG histologic features for at least 6 months in vivo. Additionally, we demonstrated that hiPSC-LGG xenograft formation requires the absence of CD4 T cell-mediated induction of astrocytic Cxcl10 expression. Genetic Cxcl10 ablation is both necessary and sufficient for human LGG xenograft development, which additionally enables the successful long-term growth of patient-derived pediatric LGGs in vivo. Lastly, MEK inhibitor (PD0325901) treatment increased hiPSC-LGG cell apoptosis and reduced proliferation both in vitro and in vivo. Collectively, this study establishes a tractable experimental humanized platform to elucidate the pathogenesis of and potential therapeutic opportunities for childhood brain tumors.
Unlocking the potential of co-applied biochar and plant growth-promoting rhizobacteria (PGPR) for sustainable agriculture under stress conditions
Authors: Malik Laraib , Sanaullah Muhammad , Mahmood Faisal , Hussain Sabir , Siddique Muhammad Hussnain , Anwar Faiza , Shahzad Tanvir 
Published: August 2022

AbstractSustainable food security is a major challenge in today’s world, particularly in developing countries. Among many factors, environmental stressors, i.e., drought, salinity and heavy metals are major impediments in achieving sustainable food security. This calls for finding environment-friendly and cheap solutions to address these stressors. Plant growth-promoting rhizobacteria (PGPR) have long been established as an environment-friendly means to enhance agricultural productivity in normal and stressed soils and are being applied at field scale. Similarly, pyrolyzing agro-wastes into biochar with the aim to amend soils is being proposed as a cheap additive for enhancement of soil quality and crop productivity. Many pot and some field-scale experiments have confirmed the potential of biochar for sustainable increase in agricultural productivity. Recently, many studies have combined the PGPR and biochar for improving soil quality and agricultural productivity, under normal and stressed conditions, with the assumption that both of these additives complement each other. Most of these studies have reported a significant increase in agricultural productivity in co-applied treatments than sole application of PGPR or biochar. This review presents synthesis of these studies in addition to providing insights into the mechanistic basis of the interaction of the PGPR and biochar. Moreover, this review highlights the future perspectives of the research in order to realize the potential of co-application of the PGPR and biochar at field scale.
Graphical Abstract