bluuebunny/crossref_metadata_2025_split huggingface dataset:
Non-linear scanning switch-off microscopy for super-resolution fluorescence imaging
Authors: Gao Zhaoshuai , Hou Shangguo , Deng Suhui , Liang Le , Wang Fei , Guo Linjie , Fang Weina , Li Qian , Kang Bin , Chen Hong-Yuan , Fan Chunhai 
Published: September 2022

Abstract
Super-resolution (SR) microscopy provides a revolutionary approach to study cells and animals by breaking the diffraction limit of optical imaging. However, the popularity of the super-resolution microscope in biological sciences remains to be impeded by the high cost of hardware and/or the complexity of software. Here, we present a conceptually different non-linear scanning switch-off microscopy (nSSM) that exploits the omnipresent switch-off effect of fluorophores to enable super-resolution imaging beyond the diffraction limit. We develop a theoretical model of nSSM and experimentally implement the nSSM scheme with an unmodified confocal microscope. We also release a free code for the automatic reconstruction of super-resolution images. By measuring the PSF of the imaged DNA origami nanostructure and mammalian cytoskeleton structures, we demonstrate an SR resolution of ~ 100 nm that excels the optical resolution limit by over two folds. We further show the generality of nSSM using a range of commercially available fluorescent dyes and proteins to realize SR imaging in various settings. This nSSM methodology may in principle empower any confocal microscope to implement SR imaging to promote biological research.
Current Trend of Water Hyacinth Expanation and Investigation of Possible Cause for Water Hyacinth Using Remote Sensing in the Case Study of Lake Tana, Ethiopia
Authors: BELAYNEH ALEMSHET , Workie Wolelaw Shebabaw , Gashaye Dejen 
Published: September 2022

Abstract
Lake Tana is facing a big problem with water hyacinth invasion since September 2011 of which it is worst for lakes in the world that invades vast area of lakes with in limited period of time if it does not control properly. Water hyacinth is an invasive and free-floating water plant that grows into large dense vegetable mats blocks transportation of boats and sun energy transmission into Lake Bottom. Since its official recognition, GPS have been used in order to delineate the infestation on the lake, but using GPS for infestation mapping is not time and cost effective, and note safe for data collectors. Considering this reason, this study focuses on mapping of water hyacinth infestation coverage area and analyzing its possible cause on Lake Tana by applying satellite imagery and nutrient level of it. In this document, Landsat 7ETM+ and Landsat 8 images were used with the conversion of DN values to TOA reflectance, and TOA were used to evaluate different spectral indices like NDWI and NDVI. These indices with dynamic threshold increasing between class variance were used to map potential water hyacinth infestation area from 2011 to 2018, and NDWI used to discriminate Lake Tana from its surrounding background feature while NDVI was used to separate open water surface from aquatic vegetation coverage areas. In addition to these indices, thermal band of Landsat images were used to discriminate water hyacinth from other features. The accuracy of satellite image classification on this study was evaluated using error matrices and achieved with the best overall accuracy and Kappa coefficient (K). Total nitrogen concentration was increased from dry month to wet month and total phosphorus was increased from wet month to dry month and potential water hyacinth was greatly found where nutrient level was highly available. To reduce infestation rate of its special soil management practice applies to reduce nutrient has to implement. In addition, there has to be buffer zone for the lake and recessional agriculture has to be stopped.
Evidence of orthohantavirus and leptospira infections in small mammals in an endemic area of Gampaha district in Sri Lanka
Authors: Sunil-Chandra N.P. , Fahlman Asa , Waidyarathna Shantha , Näslund Jonas , Jayasundara M.V.M.L. , Wesula Lwande Olivia , Bucht Göran 
Published: September 2022

Abstract
BackgroundOrthohantaviruses and leptospira are emerging zoonotic pathogens of high public health significance. The epidemiology of orthohantavirus infections and leptospirosis is similar and presents related clinical pictures in humans. However, a paucity of data on actual reservoir hosts for orthohantaviruses and leptospira exists. Therefore, this study aimed at determining the occurrence of orthohantaviruses and leptospira in small mammals captured in an endemic region of Sri Lanka.MethodsRodents and shrews were morphologically and/or genetically identified using morphological keys and DNA barcoding techniques targeting the cytochrome oxidase b subunit gene (Cytb). Lung tissues and sera were subsequently analyzed for the presence of orthohantavirus RNA using qRT-PCR and antibodies against these pathogens.ResultsForty-three (43) small mammals representing: Rattus (R.) rattus (black rat) or R. tanezumi (Asian rat), Suncus murinus (Asian house shrew), R. norvegicus (brown rat) and Mus musculus (house mouse) were investigated. No orthohantavirus RNA was detected from the lung tissue or serum samples of these animals. Elevated levels of IgG antibodies against Puumala orthohantavirus (PUUV) and/or Seoul orthohantavirus (SEOV) antigens were detected in sera of 28 (72%) out of the 39 rats analysed. Interestingly, 36 (92%) of the 39 rats also showed presence of anti leptospira-IgG antibodies in their serum, representing dual infection or dual exposure in 26/39 (66.7%) of examined rats.ConclusionsThis project targets important public health questions concerning the occupational risk of orthohantavirus infections and/or leptospirosis in an endemic region of Sri Lanka. Most rats (72%) in our study displayed antibodies reacting to orthohantavirus NP antigens, related to PUUV and/or SEOV. No correlation between the orthohantavirus and leptospira IgG antibody levels were noticed. Finally, a combination of both morphological and DNA barcoding approaches revealed that several species of rats may play a role in the maintenance and transmission of orthohantavirus and leptospira in Sri Lanka.
HDAC Inhibitor Vorinostat and BET Inhibitor Plx51107 Epigenetic Agents’ Combined Treatments Exert a Therapeutic Approach Upon Acute Myeloid Leukemia Cell Model
Authors: Alçıtepe İlayda , Salcın Hilal , Karatekin İlknur , Kaymaz Burcin Tezcanli 
Published: September 2022

Abstract
The process of cancer initiation and development is regulated via the transcriptional expression of cells going under genomic and epigenetic changes. Targeting epigenetic "readers", i.e. bromodomains (BRD) and post-translational modifications of nucleosomal histone proteins regulate gene expression in both cancerous and healthy cells. In this study, the new epigenetic agent BRD inhibitor PLX51107 and histone deacetylase (HDAC) inhibitor SAHA’ s (vorinostat) single/combined applications’ reflections were analyzed in case of cell proliferation, cytotoxicity, apoptosis, cell cycle arrest, and finally target gene expression regulation upon both AML and healthy B-lymphocyte cells; HL60 and NCI-BL2171, respectively; in vitro. Since mono treatments of either Vorinostat or Plx51107 regulated cellular responses such as growth, proliferation, apoptosis, and cell cycle arrest of tumor cells; their combination treatments exerted accelerated results. We detected that combined treatment of Plx51107 and vorinostat strengthened effects detected upon leukemic cells for gaining more sensitization to the agents, decreasing cell proliferation, dramatically inducing apoptosis, and cell cycle arrest; thus regulating target gene expressions. We have shown for the first time that the newly analyzed BRD inhibitor Plx51107 could be a promising therapeutic approach for hematological malignancies and its mono or combined usage might support a rapid transition to clinical trials.
Polyhydroxyalkanoates (PHAs) production from residual glycerol by wild type Cupriavidus necator
Authors: Nygaard Daiana , Yashchuk Oxana , Hermida Élida B 
Published: September 2022

Abstract
Purpose : The main objective of the present study is to assess and improve fermentation conditions to produce polyhydroxyalkanoates (PHAs), such as the homopolymer polyhydroxybutyrate (PHB) and the copolymer polyhydroxybutyrate-co-hydroxyvalerate (PHBV), from renewable and inexpensive industrial waste by wild type Cupriavidus necator.Methods : Untreated residual glycerol, a byproduct generated by biodiesel industry, was used as the main carbon source by wild type C. necator . The bacterial adaptation stage, the glycerol concentration and other medium components were adjusted to enhance the PHB production. Fed batch fermentation with a pulse feeding strategy of propionic acid solution was employed for PHBV production.Results: C. necator , previously adapted to glycerol utilization, was able to accumulate PHB up to 4.1 g/l under optimal substrate concentration conditions. The bacterium could also synthesize up to 3.4 g/l PHBV, with a mole fraction of 3-hydroxyvalerate (HV) up to 12 % by fed-batch fermentation with a pulsed propionic acid feed strategy.Conclusion: This is the first report on the use of residual glycerol as ideal feedstock for PHA production by native C. necator strain.
Population-adjusted Rates of Rectal Prolapse Repair in Washington State Over a Contemporary, 12-year Time Period
Authors: Soriano Celine , Tam Justina , Koenig Hannah , Kaplan Jennifer , Kobashi Kathleen , Moonka Ravi , Lee Una , Simianu Vlad V. 
Published: September 2022

Abstract

Background Rectal prolapse, with or without concurrent vaginal prolapse, is a debilitating condition. Despite debate regarding the optimal surgical approach, operative repair remains the mainstay of treatment. Our objective was to describe trends of rectal prolapse repair in Washington State. Methods A retrospective cohort of patients undergoing rectal prolapse repair was created from the Washington State Comprehensive Hospital Abstract Reporting System. Age- and sex-adjusted rates of rectal prolapse repair (RPR) alone and concurrent rectal and vaginal prolapse repair (CRVR), trends over time, and factors associated with variation in rates are described. Results There were 2755 hospitalizations in which patients underwent RPR, with 33.3% undergoing CRVR. Seventy-five percent of all repairs were in patients older than 50. Rates for rectal prolapse repair went from 3.72/100,000 people in 2008 to 3.25/100,000 people in 2019 (p = 0.003) and did not increase in patients ages 65–79 (p = 0.09) or older than 80 (p = 0.945). Perineal repairs accounted for 31% of repairs and declined after 2014. Minimally-invasive abdominal repairs doubled from 32.5% in 2008 to 65.4% in 2019 (p < 0.001). Seventy-five percent of patients lived within 20 miles of the treating facility. Conclusions Despite a broad shift towards abdominal, minimally invasive approaches, population-adjusted rates of rectal prolapse repair have remained stable in Washington State, even in elderly demographics in which rectal prolapse is more prevalent. Most patients receive operations at local facilities, but rates of repair vary with population size and number of surgeons, suggesting there are other factors driving care for rectal prolapse at a population level.
Contributions of circadian clock genes to cell survival in fibroblast models of lithium-responsive bipolar disorder.
Authors: McCarthy Michael , Mishra Himanshu , Wei Heather , Rohr Kayla , Nievergelt Caroline , Maihofer Adam , Ko Insu , Shilling Paul , Alda Martin , Berrettini Wade , Brennand Kristen , Calabrese Joseph , Coryell William , Frye Mark A. , Gage Fred , Gershon Elliot , McInnis Melvin , Nurnberger John , Oedegaard Ketil , Zandi Peter , Kelsoe John 
Published: September 2022

Abstract
Bipolar disorder (BD) is characterized by mood episodes, disrupted circadian rhythms and gray matter reduction in the brain. Lithium is an effective pharmacotherapy for BD, but not all patients respond to treatment. Lithium has neuroprotective properties and beneficial effects on circadian rhythms that may distinguish lithium responders (Li-R) from non-responders (Li-NR). The circadian clock regulates molecular pathways involved in apoptosis and cell survival, but how this overlap impacts BD and/or lithium responsiveness is unknown. In primary fibroblasts from Li-R/Li-NR BD patients and controls, we found patterns of co-expression among circadian clock and cell survival genes that distinguished BD vs. control, and Li-R vs. Li-NR cells. In cellular models of apoptosis using staurosporine (STS), lithium preferentially protected fibroblasts against apoptosis in BD vs. control samples, regardless of Li-R/Li-NR status. When examining the effects of lithium treatment of cells in vitro, caspase activation by lithium correlated with period alteration, but the relationship differed in control, Li-R and Li-NR samples. Knockdown of Per1 and Per3 in mouse fibroblasts altered caspase activity, cell death and circadian rhythms in an opposite manner. In BD cells, genetic variation in PER1 and PER3 predicted sensitivity to apoptosis in a manner consistent with knockdown studies. We conclude that distinct patterns of coordination between circadian clock and cell survival genes in BD may help predict lithium response.
PepQSAR: A Comprehensive Data Source and Information Platform for Peptide Quantitative Structure–Activity Relationships
Authors: Lin Jing , Wen Li , Zhou Yuwei , Wang Shaozhou , Ye Haiyang , Li Juelin , Shu Jianping , Huang Jian , Zhou Peng 
Published: September 2022

Abstract
Peptide quantitative structure–activity relationships (pQSARs) have been widely applied to the statistical modeling and extrapolative prediction of peptide activity, property and feature. In the procedure, the peptide structure is characterized at sequence level using amino acid descriptors (AADs) and then correlated with observations by machine learning methods (MLMs), consequently resulting in a variety of quantitative regression models used to explain the structural factors that govern peptide activities, to generalize peptide properties of unknown from known samples, and to design new peptides with desired features. In this study, we developed a comprehensive platform, termed PepQSAR database, for pQSARs, which is a systematic collection and decomposition of various data sources and abundant information regarding the pQSARs, including AADs, MLMs, data sets, peptide sequences, measured activities, model statistics, literatures, etc. The database also provides a comparison function for the various previously built pQSAR models reported by different groups via distinct approaches. The structured and searchable PepQSAR database is expected to provide a useful resource and powerful tool for the computational peptidology community, which is freely available at http://i.uestc.edu.cn/PQsarDB.
Effectiveness of Using Low-osmolarity Water-soluble Contrast in the Evaluation of Intestinal Obstruction With Conservative Management.
Authors: Navarro-Nuño Damaris Estefanía , Villarreal-Salgado José Luis , Adame-Palacios Oscar Uriel , García-Bravo Luis Manuel , Escobar-Cornejo Gibrán , Elías-Acosta Claudia Khiabet , Torres Quitzia Libertad 
Published: September 2022

Abstract
INTRODUCTION: Intestinal occlusion represents a frequent cause of medical attention in the emergency department, within the current management guidelines it is well established that conservative treatment should be used as the first option. Gastrograffin® has been recommended to be used as a contrast agent as a predictor of successful conservative management; however, it is not usually available for use in public hospitals in our country. OBJECTIVE: To determine whether oral low-osmolarity water-soluble contrast (LOWS) is useful in identifying patients with bowel obstruction who will have a good response with conservative management. MATERIAL AND METHODS: Prospective, non-randomized, cohort study conducted in patients over 18 years of age, who presented with a diagnosis of intestinal obstruction. A nasogastric tube was placed for gastric emptying and intestinal decompression. After 6 hours, improvement was assessed by the decrease in nasogastric tube output and contrast medium was administered. Bolus LOWS 50cc were used and followed up radiologically. Surgical management was considered lacking contrast 24 hours after administration. RESULTS: In 41 cases we observed adequate passage of contrast and in 7 cases it did not reach the colon, in which case surgical exploration was indicated. Of the 41 patients with adequate clearance, 7 underwent surgery because of continued symptomatology. A PPV of 100% and NPV of 82.92% were calculated. The rate of complications is closely related to the need for surgical intervention, the degree of contamination of the abdominal cavity and hospital stay, there were no adverse events associated with the use of LOWS.
Evaluation of Mandibular Trabecular Bone by Fractal Analysis in Pediatric Patients with Hypodontia
Authors: Temur Katibe Tuğçe , Magat Güldane , Coskunarslan Aykagan , Önsüren Aslı Soğukpınar , Özcan Sevgi 
Published: September 2022

Abstract
Objective: In the literature, it is still unclear whether the trabecular structure of the jaw in subjects with hypodontia is different from those without hypodontia. Hence, the aim was to determine whether the mandibular trabecular bone structure of children and adolescents with hypodontia differs from the control group by using the fractal analysis method in this study.Materials and Methods: A total of 138 radiographs of 69 cases and 69 control subjects (mean age 13.2±10.1) were evaluated. The age and gender of subjects in the case and control groups were matched. Three regions of interest (ROI) were selected from the panoramic radiographs. Mann-Whitney U and Wilcoxon tests were used. p<0.05 was accepted for the significance value.Results: The mean fractal dimension (FD) values of ROI1, ROI2, and ROI3 were 1,25, 1,20, and 1,13, respectively. The means FD values obtained from the ramus region were higher than the other regions (p<0.05). The FD values did not differ significantly according to gender and age (p>0.05). The FD values of the case group were lower than the control group for ROI3 (p<0.05).Conclusions: The results of this study showed that the mandibular trabecular bone quality of pediatric patients with one missing tooth was different from the healthy group. The difference in the mean FD values from the ROIs indicates that the ramus has a denser structure than the mandibular corpus. Therefore, it shows that individuals with hypodontia may need additional procedures in cases that require orthodontic and implant treatment.Clinical Relevance: Clinicians should consider that individuals with hypodontia may need additional procedures in cases requiring orthodontic and implant treatment.
Toward Hepatitis C Elimination in Marginalized Populations by a Collaborative Multi-setting Approach
Authors: Su Wei-Wen , Yang Chih-Chao , Chang Rene Wei-Jung , Yeh Yung-Hsiang , Yen Hsu-Heng , Yang Chi-Chieh , Lee Yu-Lin , Liu Chun-Eng , Liang Sun-Yuan , Sung Man-Li , Ko Shu-Yu , Kuo Chung-Yang , Chen Sam Li-Sheng , Yeh Yen-Po , Hu Tsung-Hui 
Published: September 2022

Abstract
Background:
Treating marginalized populations with hepatitis C presents a difficult challenge in achieving the 2025 goal of hepatitis C elimination in Taiwan. We report the novel experience of Changhua county in Taiwan in characterizing and treating these populations.
Methods:
The Changhua integrated program to stop HCV infection (CHIPS-C) adopted a multidisciplinary care approach within marginalized populations and enrolled patients from 2019 Jan to 2020 Dec. This model incorporated active collaboration between different teams with gastroenterologists, psychologists, infectious disease doctors, and nursing coordinators.
Results:
There were 303 patients who attended methadone clinics, 3222 persons in correctional institutions, 2853 persons within the national HIV surveillance program (noted as “People under surveillance program”), and 731 HIV-positive patients recruited during the study period. 25.41% (73/303) of methadone clinic patients, 17.65% (129/731) of HIV clinic patients, and 44.3% (41/93) of Group B (deferred prosecuted or probationary people under protective parole) within the “People under surveillance program” category were also recruited into other settings during this period of time. Patients in methadone clinics have the highest seroprevalence of HCV (86%), followed by prisoners (45.23%), patients who attended HIV clinics (35%), and patients within groups of the “People under surveillance program” category (2.94% to 59.52%). Overall, the HCV RNA positivity rate is 70% and the treatment rate is 85%. The proportions of RNA testing and treatment are similar among groups.
Conclusion:
Overlapping characteristics were observed in these populations which highlights that a simultaneous rapid scale-up of treatment was important in these cohorts to lead to HCV elimination.
Long-term Outcomes of Adult Patients following Surgery for Congenital Colorectal Conditions: Analysis of Psychosocial Functioning
Authors: Judd-Glossy Laura , Ariefdjohan Merlin , Ketzer Jill , Wehrli Lea A. , Pena Alberto , Torre Luis de la , Bischoff Andrea 
Published: September 2022

Abstract
Purpose: This study aimed to obtain information about the psychosocial functioning of adults with various congenital colorectal conditions (e.g., anorectal malformation, Hirschsprung disease). Methods: A research registry of adult patients with colorectal conditions was developed. Items included demographics, medical diagnosis/treatment, and measures of anxiety and depression. Descriptive and inferential statistical approaches were applied to summarize data and determine significant differences in the average scores for depression and anxiety between various groupings of diagnoses, gender, race, and the use of psychotropic medication. Results: Study measures were completed by 131 adults. Depression and anxiety scores were significantly higher for women than men and those self-identified as non-binary (p=0.012, <0.001, respectively). No significant differences in depression and anxiety scores were found due to colorectal diagnosis (p>0.05). Participants who identified as Asian had significantly higher depression scores than participants of other races (p=0.002); but no significant difference was noted for anxiety scores (p=0.065). Conclusions: Results suggest that depression and anxiety scores were significantly influenced by gender and race. However, colorectal diagnosis was not a predictor of depression or anxiety. It is important for colorectal providers to be aware of the psychosocial implications of congenital colorectal conditions and consider how to provide adequate support to address patients’ psychosocial needs.
Modeling and Mathematical Analysis of Liquidity Risk Contagionin the Banking System an optimal control
Authors: FAHIM SAID , MOURAD Hamza , LAHBY Mohamed 
Published: September 2022

Abstract
Modeling the spread of contagiousness is well known in epidemiology. However, theapplication of spread modeling to the banking system is quite recent.Optimal control theory analyzes the properties of controlled systems, ie systems on which one canact by means of a command.In this work, we present a liquidity risk problem in the banking system with an optimal controlterm is formulated in order to study the impact of a possible central bank measure in the economy,simulating data from the largest European banks.Then, the proposed approach allows qualitative specifications of contagion in obtaining bankingand adequate analysis and prognosis within the development of the financial and macroeconomicsector as a whole. We show that our model de-reflects the reality of the largest European banks.The simulations were done with optimal control python, and the main results are taken for threedistinct scenarios.