bluuebunny/crossref_metadata_2025_split huggingface dataset:
Detection of mecA gene and methicillin-resistant Staphylococcus aureus (MRSA) isolated from milk and risk factors from farms in Probolinggo, Indonesia
Authors: Rafif Khairullah Aswin , Rehman Saifur , Agus Sudjarwo Sri , Helmi Effendi Mustofa , Chasyer Ramandinianto Sancaka , Aega Gololodo Maria , Widodo Agus , Hendriana Priscilia Riwu Katty , Ayu Kurniawati Dyah 
Published: September 2022

Background: Staphylococcus aureus is commonly found in dairy cows and is a source of contamination in milk. S. aureus that are resistant to beta-lactam antibiotics (especially cefoxitin) are referred to as methicillin-resistant Staphylococcus aureus (MRSA). The spread of MRSA cannot be separated from sanitation management during milking; it can originate from milk collected from the udder or from the hands of farmers during the milking process. The purpose of this study was to examine the level of MRSA contamination in dairy cow's milk and farmer's hand. Methods: A total of 109 samples of dairy cow’s milk and 41 samples of farmer’s hand swabs were collected at a dairy farm in Probolinggo, East Java, Indonesia. Samples were cultured and purified using mannitol salt agar (MSA). The profile of S. aureus resistance was established by disk diffusion test using a disk of beta-lactam antibiotics, namely oxacillin and cefoxitin. Results: The S. aureus isolates that were resistant to oxacillin and cefoxitin antibiotics were then tested for oxacillin resistance screening agar base (ORSAB) as a confirmation test for MRSA identity. S. aureus isolates suspected to be MRSA were then tested genotypically by polymerase chain reaction (PCR) method to detect the presence of the mecA gene. The results of the isolation and identification found 80 isolates (53.33%) of S. aureus. The results of the resistance test found that 42 isolates (15%) of S. aureus were resistant to oxacillin and 10 isolates (12.5%) were resistant to cefoxitin. The ORSAB test found as many as 20 isolates (47.62%) were positive for MRSA. In PCR testing to detect the presence of the mecA gene, three isolates (30%) were positive for the mecA gene. Conclusions: This study shows that several S. aureus isolates were MRSA and had the gene encoding mecA in dairy farms.
Genetic and environmental perturbations alter the rhythmic expression pattern of a circadian long non-coding RNA, Per2AS, in mouse liver
Authors: Miao Lin , Batty Kyle R. , Jackson Ayana N. , Pieno Heather A. , Rhoades Maisy W. , Kojima Shihoko 
Published: September 2022

Background: Long non-coding RNAs (lncRNAs) play a wide variety of biological roles without encoding a protein. Although the functions of many lncRNAs have been uncovered in recent years, the regulatory mechanism of lncRNA expression is still poorly understood despite that the expression patterns of lncRNAs are much more specific compared to mRNAs. Here, we investigated the rhythmic expression of Per2AS, a novel lncRNA that regulates circadian rhythms. Given that Per2AS expression is antiphasic to Period2 (Per2), a core circadian clock gene, and transcribed from the antisense strand of Per2, we hypothesized that the rhythmic Per2AS expression is driven either by its own promoter or by the rhythmic Per2 transcription via transcriptional interference. Methods: We leveraged existing circadian RNA-seq datasets and analyzed the expression patterns of Per2AS and Per2 in response to the genetic or environmental disruption of the circadian rhythm in mouse liver. We tested our hypotheses by comparing the changes in the expression patterns of Per2AS and Per2. Conclusions: We found that, in some cases, Per2AS expression is independently controlled by other circadian transcription factors. In other cases, the pattern of expression change is consistent with both transcriptional interference and independent regulation hypotheses. Although additional experiments will be necessary to distinguish these possibilities, findings from this work contribute to a deeper understanding of the mechanism of how the expression of lncRNA is regulated.
Bio-oil production from biogenic wastes, the hydrothermal conversion step
Authors: Haarlemmer Geert , Roubaud Anne 
Published: September 2022

Background: Food wastes are an abundant resource that can be effectively valorised by hydrothermal liquefaction to produce bio-fuels. The objective of the European project WASTE2ROAD is to demonstrate the complete value chain from waste collection to engine tests. The principle of hydrothermal liquefaction is well known but there are still many factors that make the science very empirical. Most experiments in the literature are performed on batch reactors. Comparison of results from batch reactors with experiments with continuous reactors are rare in the literature. Methods: Various food wastes were transformed by hydrothermal liquefaction. The resources used and the products from the experiments have been extensively analysed. Two different experimental reactors have been used, a batch reactor and a continuous reactor. This paper presents a dataset of fully documented experiments performed in this project, on food wastes with different compositions, conditions and solvents. The data set is extended with data from the literature. The data was analysed using machine learning analysis and regression techniques. Results: This paper presents experimental results on various food wastes as well as modelling. Aqueous phase recycling allows the re-use of some of the solubilised organics, but this paper shows that after some recycles, the yield is principally in the char yield and not so much in the oil yield. The experimental results were further used to attempt to establish a link between batch and continuous experiments. The molecular weight of bio-oil from continuous experiments appear higher than that of batch experiments. This may be due to the configuration of our reactor. Conclusions: This paper shows how the use of regression models help with understanding the results, and the importance of process variables and resource composition. A novel data analysis technique gives an insight on the accuracy that can be obtained from these models.
Best Response Intersection: An Optimal Algorithm for Interdiction Defense
Authors: Mastin Andrew , Baxter Arden , Musselman Amelia , Watson Jean-Paul 
Published: September 2022

We define the interdiction defense problem as a game over a set of targets with three stages: a first stage where the defender protects a subset of targets, a second stage where the attacker observes the defense decision and attacks a subset of targets, and a third stage where the defender optimizes a system using only the surviving targets. We present a novel algorithm for optimally solving such problems that uses repeated calls to an attacker’s best response oracle. For cases where the defender can defend at most k targets and the attacker can attack at most z targets, we prove that the algorithm makes at most [Formula: see text] calls to the oracle. In application to the direct current optimal power flow problem, we present a new mixed integer programming formulation with bounded big-M values to function as a best response oracle. We use this oracle along with the algorithm to solve a defender-attacker-defender version of the optimal power flow problem. On standard test instances, we find solutions with larger values of k and z than shown in previous studies and with runtimes that are an order of magnitude faster than column and constraint generation. Funding: This work was sponsored in part by the U.S. Department of Energy Office of Electricity’s Advanced Grid Modeling (AGM) program. This work was performed under the auspices of the U.S. Department of Energy by Lawrence Livermore National Laboratory [Contract DE-AC52-07NA27344].
Low antithrombin levels are associated with low risk of cardiovascular death but are a risk factor for cancer mortality
Authors: Iacoviello Licia , de Laat-Kremers Romy , Costanzo Simona , Yan Qiuting , Di Castelnuovo Augusto , van der Vorm Lisa , De Curtis Amalia , Ninivaggi Marisa , Cerletti Chiara , Donati Maria Benedetta , de Laat Bas ,   on behalf of the Moli-sani Investigators
Published: September 2022

Background
Thrombosis is common in subjects suffering from cardiovascular diseases (CVD) and cancer. Hypercoagulation plays a pivotal role in the pathophysiology of thrombosis. Therefore, the inactivation of thrombin, the key enzyme in coagulation, is tightly regulated via antithrombin (AT). AT deficiency is related to thrombosis and cardiovascular death. In this study we investigated the association between AT levels and mortality, in particularly cardiovascular-related and cancer-related death in the general population.

Methods
We studied the association of AT levels and mortality in a prospective cohort sampled from the general Italian population (n = 19,676). AT levels were measured in the baseline samples, and mortality was recorded during a median follow-up period of 8.2 years. Cox regression was performed to investigate the association of all-cause, CVD-related and cancer-related mortality with variations in AT levels.

Results
In total, 989 subjects died during follow-up, of which 373 subjects of CVD and 353 of cancer-related causes. Cox analysis revealed that, after adjustment for age, sex, current smoking, BMI, diabetes, hypertension, hypercholesterolemia, history of cardiovascular disease, history of cancer, vitamin K antagonists, antiplatelet medication, heparin and oral contraceptives AT levels were not associated with all-cause mortality (HRQ1vsQ5: 0.92, 95% CI:0.74–1.15). Interestingly, the risk of CVD-related mortality was reduced in subjects with low AT levels compared to subjects with higher AT levels, after adjustment for age and sex and other confounders did not change the association (HRQ1vsQ5: 0.64, 95% CI:0.44–0.91). Moreover, low AT levels were associated with increased cancer mortality in a fully adjusted model (HRQ1vsQ2-5: 1.26, 95% CI:0.88–1.81).

Conclusions
Low AT levels are associated to a lower risk of fatal cardiovascular events in the general population, regardless of age, sex and medication use. In contrast, low AT levels are associated with lower cancer survival. For the first time we show that AT levels lower than the normal range in the general population, even before the development or diagnosis of cancer, are associated with an elevated risk of cancer death.
A double whammy: The association between comorbidities and severe dengue among adult patients—A matched case-control study
Authors: Ng Wei Yao , Atan Rafidah , Mohd Yunos Nor’azim , bin Md Kamal Adam Harrish , Roslan Mohd Hariz , Quah Kai Yuan , Teh Kai Xuan , Zaid Masliza , Kassim Mahazir , Mariapun Jeevitha , Ngim Chin Fang , Dhanoa Amreeta , Yeo Tsin Wen 
Published: September 2022

BackgroundDengue infection is the most prevalent mosquito-borne viral infection globally. Concurrently, there has also been an upsurge of non-communicable comorbidities. We aimed to investigate the association between these comorbidities and the development of severe dengue.MethodsWe performed a retrospective, case-control study involving 117 cases with severe dengue and 351 controls with non-severe dengue; matched according to gender, age (+/- 5 years old), and admission date (+/- 2 weeks). We analyzed the data using conditional odds ratio (cOR) and adjusted conditional odds ratio (AcOR) using univariate and multivariable conditional logistic regression respectively.ResultsSix main comorbidities namely obesity, diabetes mellitus, hypertension, hyperlipidemia, chronic pulmonary disease, and ischemic heart disease were observed among cases and controls. Multivariable conditional logistic regression model found only hypertension to be independently associated with the development of severe dengue (ACOR 2.46; 95% CI:1.09–5.53). Among symptoms at presentation, lethargy, vomiting, bleeding manifestations, and abdominal pain were associated with increased odds of severe dengue, although the associations were not statistically significant. Headache (ACOR: 0:32; 95% CI: 0.21–0.51) and skin rash (ACOR: 0.42; 95% CI: 0.22–0.81) were associated with significantly lower odds of severe dengue. Severe dengue patients were also found to have significantly higher white cell count, urea, creatinine, alanine aminotransferase, aspartate aminotransferase, creatine kinase, and lactate dehydrogenase on admission, while platelet and albumin were significantly lower compared to non-severe dengue patients.ConclusionsOur study found a significant association between hypertension and the development of severe dengue in adult patients. For clinical practice, this finding suggests that dengue patients with underlying hypertension warrant closer clinical monitoring for deterioration. The association between significant derangement in various laboratory parameters and severe dengue as shown in this study is in keeping with previous reports. While further substantiation by larger prospective studies will be desirable, this association may serve to inform the dengue triaging process.
Co-production of a nature-based intervention for children with ADHD study (CONIFAS): Protocol for co-production phases
Authors: Armitt Hannah A. , Kingsley Ellen N. , Attwell Leah , White Piran C. L. , Woolley Kat , Garside Megan , Green Natasha , Hussey Michael , Coventry Peter A. 
Published: September 2022

Children with Attention Deficit Hyperactivity Disorder can face difficulties with inattention, hyperactivity, and impulsivity, which can impact many areas of their lives, including their educational attainment and social and emotional wellbeing. Involvement in nature-based activities can reduce these difficulties and improve wellbeing, but there are limited resources for supporting children with this diagnosis to access these approaches and no nature-based interventions designed with and for this group. This protocol describes a co-production study in which children diagnosed with Attention Deficit Hyperactivity Disorder aged 5–11 years old, their parents/guardians, and professionals will attend a series of workshops to share their knowledge to co-produce a new nature-based intervention for this population of children. We aim to understand how the children’s’ experiences of Attention Deficit Hyperactivity Disorder may affect their interactions with nature, identify how activity in and with nature may help with symptom reduction and general wellbeing, and co-produce an intervention for families which applies our learning. The result of this study will be the designed intervention and insights into how children and young people with Attention Deficit Hyperactivity Disorder interact with nature. The prototype intervention will then undergo feasibility testing in a future study.
Trail registration: NIHR203043; ISRCTN11763460.
Knowledge transfer of eLearning objects: Lessons learned from an intercontinental capacity building project
Authors: Lim Hooi Min , Ng Chirk Jenn , Wharrad Heather , Lee Yew Kong , Teo Chin Hai , Lee Ping Yein , Krishnan Kuhan , Abu Hassan Zahiruddin Fitri , Yong Phelim Voon Chen , Yap Wei Hsum , Sellappans Renukha , Ayub Enna , Hassan Nurhanim , Shariff Ghazali Sazlina , Jahn Kassim Puteri Shanaz , Nasharuddin Nurul Amelina , Idris Faridah , Taylor Michael , Poussa Cherry , Karlgren Klas , Stathakarou Natalia , Mordt Petter , Konstantinidis Stathis 
Published: September 2022

Background
Effective knowledge transfer of eLearning objects can hasten the adoption and dissemination of technology in teaching and learning. However, challenges exist which hinder inter-organisational knowledge transfer, particularly across continents. The ACoRD project aimed to transfer knowledge on digital learning development from UK/EU (provider) to Malaysian (receiver) higher education institutions (HEIs). This study explores the challenges encountered during the knowledge transfer process and lessons learned.

Methods
This is a qualitative study involving both the knowledge providers and receivers in focus group discussions (n = 25). Four focus group discussions were conducted in the early (n = 2) and mid-phase (n = 2) of the project by trained qualitative researchers using a topic guide designed to explore experiences and activities representing knowledge transfer in multi-institutional and multi-cultural settings. The interviews were audio-recorded, transcribed verbatim, and checked. The transcripts were analysed using thematic analysis.

Results
Five main themes emerged from this qualitative study: mismatched expectations between providers and receivers; acquiring new knowledge beyond the professional "comfort zone"; challenges in cascading newly acquired knowledge to colleagues and management; individual and organisational cultural differences; and disruption of knowledge transfer during the COVID-19 pandemic.

Conclusion
This study highlights the need to create a conducive platform to facilitate continuous, timely and bi-directional needs assessment and feedback; this should be done in the early phase of the knowledge transfer process. The challenges and strategies identified in this study could guide more effective knowledge transfer between organisations and countries.
First wave COVID-19 pandemic in Senegal: Epidemiological and clinical characteristics
Authors: Diarra Maryam , Barry Aliou , Dia Ndongo , Diop Mamadou , Sonko Ibrahima , Sagne Samba , Sarr Fatoumata Diene , Talla Cheikh , Tall Adama , Faye Joseph , Diop Boly , Diagne Cheikh Tidiane , Gaye Aboubacry , Diallo Amadou , Mbaye Rose , Cisse Mamadou , Taieb Fabien , Faye Oumar , Lakhe Ndeye Aissatou , Papa Samba Ba , Diallo Khardiata , Fall Ndeye Maguette , Badiane Aboubakar Sadikh , Fortes Louise , Diop Moustapha , Thioub Daouda , Ly Alioune Badara , Faye Ousmane , Seydi Moussa , Bousso Abdoulaye , Sall Amadou A. , Loucoubar Cheikh ,   Senegalese District Medical Officers
Published: September 2022

Background
The novel coronavirus disease 2019 (COVID-19) pandemic has spread from China to the rest of the world. Africa seems less impacted with lower number of cases and deaths than other continents. Senegal recorded its first case on March 2, 2020. We present here data collected from March 2 to October 31, 2020 in Senegal.

Methods
Socio-demographic, epidemiological, clinical and virological information were collected on suspected cases. To determine factors associated with diagnosed infection, symptomatic disease and death, multivariable binary logistic regression and log binomial models were used. Epidemiological parameters such as the reproduction number and growth rate were estimated.

Results
67,608 suspected cases were tested by the IPD laboratories (13,031 positive and 54,577 negative). All age categories were associated with SARS-CoV-2 infection, but also patients having diabetes or hypertension or other cardiovascular diseases. With diagnosed infection, patients over 65 years and those with hypertension and cardiovascular disease and diabetes were highly associated with death. Patients with co-morbidities were associated with symptomatic disease, but only the under 15 years were not associated with. Among infected, 27.67% were asymptomatic (40.9% when contacts were systematically tested; 12.11% when only symptomatic or high-risk contacts were tested). Less than 15 years-old were mostly asymptomatic (63.2%). Dakar accounted for 81.4% of confirmed cases. The estimated mean serial interval was 5.57 (± 5.14) days. The average reproduction number was estimated at 1.161 (95%CI: 1.159–1.162), the growth rate was 0.031 (95%CI: 0.028–0.034) per day.

Conclusions
Our findings indicated that factors associated with symptomatic COVID-19 and death are advanced age (over 65 years-old) and comorbidities such as diabetes and hypertension and cardiovascular disease.
Treacher Collins syndrome – a case report
Authors: Fraszczyk-Tousty Magda , Jankowska Agata , Tousty Joanna , Tousty Piotr , Łoniewska Beata 
Published: September 2022

Abstract

Objectives
Treacher Collins syndrome (TCS), also known as mandibulofacial dysostosis and Franceschetti-Zwahlen- Klein syndrome, is an autosomal dominant disorder of soft tissue and the craniofacial bones. In most cases, TCS is the result of a mutation in the TCOF1 gene. The incidence is estimated to be between 1/10,000 and 1/50,000 live births. Our purpose was to describe a case report of patient with TCS born in the Department of Neonatology at the Pomeranian Medical University in Szczecin (Poland) and his family with short review of literature.

Case presentation
Clinical abnormalities which were found after birth mainly affect the head – hypoplasia of the cheek bones and the zygomatic bones, micrognation, deformed auricles with undeveloped external auditory canals, retrognathia of the mandible, cleft hard and soft palate and narrow palpebral fissure.

Conclusions
The treatment of children with TCS is long-term. Patients require a series of reconstructive and plastic surgical procedures. Our patient presented the complete form of TCS. There are multiple surgeries awaiting him, which, eventually, will improve his quality of life.
Effects of weight-bearing vs. non-weight-bearing endurance exercise on reducing body fat and inflammatory markers in obese females
Authors: Andiana Olivia , Welis Wilda , Taufik Muhamad Syamsul , Widiastuti  , Siregar Abdul Hakim , Raharjo Slamet 
Published: September 2022

Abstract

Objectives
Endurance exercise is an effective strategy for maintaining an anti-inflammatory environment and weight management. However, the effect of this type of exercise on decreasing body fat and TNF-α levels and increasing adiponectin levels is controversial. The aims of this study was to prove the effects of weight-bearing vs. non-weight-bearing endurance exercise on reducing body fat and inflammatory markers in obese females.

Methods
24 obese adolescents were recruited from female students from the State University of Malang. The interventions given in this study were weight-bearing endurance exercise (WBEE), and non-weight-bearing endurance exercise (NWBEE). Serum TNF-α levels and serum adiponectin levels were evaluated using enzyme-linked immunosorbent assay (ELISA). Statistical analysis techniques use paired sample T-test with a significant level of 5%.

Results
Results of the statistical analysis show that the average body fat (PBF, FM, FFM) and TNF-α levels before endurance exercise vs. after endurance exercise in both types of exercise experienced a significant decrease (p≤0.05), while average adiponectin levels in both types of exercise experienced a significant increase before endurance exercise vs. after endurance exercise (p≤0.001).

Conclusions
In general, it can be concluded that weight-bearing and non-weight-bearing endurance exercise with moderate-intensity for 40 min/exercise session reduce body fat and TNF-α levels and increase adiponectin levels as a marker of inflammation in obese female.
Optimization of target acquisition and sorting for object-finding multi-manipulator based on open MV vision
Authors: Dong Na , Meng Fanjing , Raffik Rasheed , Shabaz Mohammad , Neware Rahul , Krishnan Sangeetha , Na Kama 
Published: September 2022

Abstract
To optimize the mechanical arm target capture and classification of the open multiple-view (MV) visualization program, the open MV visualization programming and deep learning detection method combined with the different capture strategies of robotic arm, a method to extend the research is proposed. For the proposed sorting robot’s multi-cargo grasping, the analysis required to detect a wide variety of goods in a storage environment that lacks color or structural features uniformly. On the basis of SSD target detection method regression, the object’s 3D position information is reconstructed by default preselected cell selection. 3D coordinate accuracy of binocular navigation system was verified as 8% when the target cargo location distance is more than 5 cm, and binoculars matching success rate is 89.7%. The success rate of Sorting and hoarding is increased from 6% to 85% by adding a change to the scoring points of the target products of uneven quality, with this we have achieved efficient and accurate import.