bluuebunny/crossref_metadata_2025_split huggingface dataset:
hnRNPK-regulated LINC00263 promotes malignant phenotypes through miR-147a/CAPN2
Authors: Lee Woo Joo , Shin Chang Hoon , Ji Haein , Jeong Seong Dong , Park Mi-So , Won Hong-Hee , Pandey Poonam , Gorospe Myriam , Kim Hyeon Ho 
Published: November 2020

Abstract
Background: Malignant characteristics of cancers, represented by rapid cell proliferation and high metastatic potential, are a major cause of high cancer-related mortality. As a multifunctional RNA-binding protein, heterogeneous nuclear ribonucleoprotein K (hnRNPK) is closely associated with cancer progression in various types of cancers. In this study, we sought to identify hnRNPK-regulated long intergenic non-coding RNAs (lincRNAs) that play a critical role in the regulation of cancer malignancy.Methods: Malignant phenotypes including metastatic and proliferative potential were examined using Transwell invasion assay, cell counting, and colony forming assay. To search for hnRNPK-regulated lincRNAs, RNA sequencing was performed. Using small RNA sequencing followed by antisense oligonucleotide pull-down, lincRNA-associated miRNAs were selected. The association between miRNA and target mRNA was determined by Argonaute 2-immunoprecipitation and luciferase reporter assay. Results: We found that hnRNPK controlled malignant phenotypes including invasiveness, proliferation, and clonogenicity. RNA sequencing and functional studies revealed that LINC00263, a novel target of hnRNPK, is involved in the oncogenic functions of hnRNPK. Knockdown of LINC00263 mitigated the malignant capabilities. Conversely, increased malignant phenotypes were observed in LINC00263-overexpressing cells. We also found that miR-147a negatively regulates LINC00263 via direct interaction, thus suppressing malignant capabilities. Moreover, knockdown of hnRNPK and LINC00263 upregulated miR-147a, indicating that LINC00263 serves as a ceRNA for miR-147a. By analyzing RNA sequencing data and miRNA target prediction, calpain 2 (CAPN2) was identified as a putative target of miR-147a. Ago2-IP and luciferase reporter assay revealed that miR-147a suppressed CAPN2 expression by directly binding to the 3'UTR of CAPN2 mRNA. Additionally, we found that the weakened malignant capabilities following knockdown of hnRNPK or LINC00263 were restored by miR-147a inhibition or CAPN2 overexpression.Conclusions: Our findings demonstrate that hnRNPK-regulated LINC00263 plays an important role in cancer malignancy by acting as a miR-147a decoy and thus upregulating CAPN2.
Impact of Land Use and Land Cover Change on Soil Erosion Using Rusle Model And Gis: A Case of Temeji Watershed, Western Ethiopia
Authors: Moisa Mitiku Badasa , Negash Daniel Assefa , Merga Biratu Bobo , Gemeda Dessalegn Obsi 
Published: November 2020

Abstract
BackgroundThe impact of Land Use/Land Cover (LULC) conversion on soil resources is getting global attention. Soil erosion is one the critical environmental problems worldwide with high severity in developing countries due to land degradation. This study integrates the Revised Universal Soil Loss Equation (RUSLE) model with a Geographic Information Systems (GIS) to estimate the impacts of LU/LC conversion on the mean annual soil loss in Temeji watershed. In this study, LU/LC change of Temeji watershed were assessed from 2000 to 2020 by using 2000 Landsat ETM+ and 2020 Landsat OLI/TIRS images and classified using supervised maximum likelihood classification algorithms. ResultsResults indicates that majority of the LU/LC in the study area is vulnerable to soil erosion. Our findings show that cultivated land had the highest average soil loss rate in Temeji watershed. High soil loss is observed when grass and forest land were converted into cultivated land with mean soil loss of 88.8t/ha/yr and 86.9t/ha/yr in 2020. Results revealed that about 6608.5ha (42.8%) and 8391.8ha (54.4%) were categorized under severe classes in 2000 and 2020, respectively.ConclusionsThe results can definitely support policy makers and environmental managers in implementation of soil and water conservation practices and erosion risk prevention and mitigation strategies in Temeji watershed.
Acute Pancreatitis Associated with Hemorrhagic Fever with Renal Syndrome: A Cohort Study of 346 Patients
Authors: Guo Qinyue , Du Bin , Xu Jing , Shi Qindong 
Published: November 2020

Abstract
Background: Acute pancreatitis is one of the rare complications of hemorrhagic fever with renal syndrome (HFRS), usually ending with high mortality rate and severe prognosis. In this study, we retrospectively analyzed to explore the risk factors, clinical characteristics, and outcomes in totally 346 patients with HFRS.Methods: We retrospectively reviewed the 358 cases diagnosed with HFRS from January 2013 to July 2020, including 29 cases complicated with acute pancreatitis (AP). Clinical information and laboratory parameters were obtained by Hospital Information System. The characteristics and clinic outcomes between the HFRS group and HFRS-AP group were compared by multivariate analysis and a nested case-control study, respectively.Results: 346 eligible patients diagnosed with HFRS, of which 29 (8.38%) developed acute pancreatitis. While 19 (65.5%) were male, 10 (34.5%) were female. The mean age was 44.38 years. For life style analysis, 11 (37.9%) of 29 exhibited a habit of smoking, and 9 (31.0%) exhibited drinking. The 90-day mortality was 7 (24.14%) for the HFRS+AP patients and 7 (2.21%) for the HFRS patients (p < 0.001). Multivariate analysis indicated that HFRS patients, who confirmed AP, were associated with increased mortality (aOR:17.60; 95% CI, 4.3–73.3) and other poor prognoses; the same trend was shown in propensity matched data. Liver function and inflammatory parameters (except procalcitonin) were expressed much worse in AP patients (p < 0.05, respectively). Serum calcium shown a negative correlated with AP patients (p < 0.05).Conclusions: Our study indicates that patients with HFRS-AP are significantly associated with higher mortality and poor prognoses, it should be alert and complete necessary test for properly diagnosis on admission. In future, cohort study and randomized control trail are highly required for the best treatment of HFRS-AP.
Analysis of the relationship between bile duct and duodenal microbiota reveals that dysbacteriosis is the main cause of primary common bile duct stones
Authors: Lyu Zhitang , Yu Tingting , Zhang Lichao , Wang Lina , Shi Jiahui , Li Jihong , Li Zhirong , Zhang Wei , Hou Senlin , Hou Suning 
Published: November 2020

Abstract
Background Bacteria play an important role in the formation of primary CBD stones. While the composition and function of the microbiota of bile duct in patients with primary CBD stones could not be explained in the whole. Intestinal dysbacteriosis is related to the formation of many diseases, but there are relatively few reports on the effects of intestinal microbial community on the formation of primary CBD stones, but none of these studies have a normal population of biliary tract and gut microbiota as control.Result We use the 16S rRNA gene high-throughput sequencing technology to analyze the microbial diversity and community composition of biliary and duodenal microbiota in 15 patients with primary CBD stones (EG) and 4 patients without biliary tract disease (CK), and we divided above samples into four subgroups: B (EG bile), D (EG duodenal juice), BCK (CK bile)and DCK (CK duodenal juice). Alpha diversity analysis showed that only the abundance and evenness in B were lower than that in DCK (P<0.05); Beta diversity analysis showed that there were some differences in the composition between biliary microbiota and the duodenal microbiota, but the abundance of the main groups showed similarities. Proteobacteria and Firmicutes were the dominant bacteria at phylum level accounted for at least 75% of the total reads in each subgroup. It is noteworthy that Clostridium sensu_stricto (VIP>1), Lachnospiraceae _UCG-008 (VIP>1), Butyrivibrio (VIP>1) and Roseburia (VIP> 1) which could produce short chain fatty acids (SCFA), were significantly decreased in B (p<0.05) than that in BCK. Conclusion According to the results, dysbacteriosis of biliary and duodenal microbiota plays an important role in the formation of primary CBD stones. The decrease in abundance of certain major acid-producing bacteria affects the health of the biliary tract and thus leads to the formation of stones.
X-chromosome inactivation patterns in females with Fabry disease examined by both ultra-deep RNA sequencing and methylation-dependent assay
Authors: Rossanti Rini , Nozu Kandai , Fukunaga Atsushi , Nagano China , Horinouchi Tomoko , Yamamura Tomohiko , Sakakibara Nana , Minamikawa Shogo , Ishiko Shinya , Aoto Yuya , Okada Eri , Ninchoji Takeshi , Kato Noritoshi , Maruyama Shoichi , Nishi Shinichi , Iijima Kazumoto , Fujii Hideki 
Published: November 2020

Abstract
Background: Fabry disease is an X-linked inherited lysosomal storage disorder related to GLA mutations, gene encoding α-galactosidase A. In general, males has severe phenotype, while females has a wide spectrum of sign and symptoms, from asymptomatic to a more classical profile including cardiac, renal, and cerebrovascular manifestations. This variability has been assumed to be derived from organ-dependent skewed X-chromosome inactivation (XCI) patterns in each female patient. Some previous studies examined this correlation using the classical methylation-dependent method; however, conflicting results were obtained. This study was established to determine the existence of skewed XCI in nine females with heterozygous pathogenic variants in the GLA gene and its relationship to the phenotypes. Methods: We present five female patients from one family and four individual female patients with Fabry disease. In all cases, heterozygous pathogenic variants in the GLA gene were detected. The X-chromosome inactivation patterns in peripheral blood leukocytes and cells of urine sediment were determined by both classical methylation-dependent HUMARA assay and ultra-deep RNA sequencing, the latter being a method that we recently developed. Results: Among all cases, skewed XCI resulting in predominant inactivation of the normal allele was observed only in one individual case with a severe phenotype. In the other eight cases, no skewing was observed, even among cases with severe phenotypes. Conclusions: We conclude that skewed XCI could explain the severity of Fabry disease in only a limited number of female cases and is not the main factor in the onset of various clinical symptoms in females with Fabry disease.
Estimating the indirect prevalence of Female Genital Mutilation/Cutting in Switzerland
Authors: Cottler-Casanova Sara , Abdulcadir Jasmine 
Published: November 2020

Abstract
ObjectiveTo update the indirect prevalence estimates for women and girls living with Female Genital Mutilation Cutting (FGM/C) in Switzerland, using data from the Swiss Federal Statistical Office of migrant women and girls born in one of the 30 high-prevalence FGM/C countries that are currently living in Switzerland. MethodsWe used Yoder and Van Baelen’s “Extrapolation of FGM/C Countries’ Prevalence Data” method, where we applied DHS and MICS prevalence figures from the 30 countries when FGM/C is practiced, and applied them to the immigrant women and girls living in Switzerland from the same 30 countries.ResultsIn 2010, the estimated indirect prevalence was 9,059 whereas in 2018, the estimated indirect prevalence was 21,706 women and girls living with or at risk of FGM/C.ConclusionOver the past decade, there have been significant increases in the number of estimated women and girls living with or at risk of FGM/C in Switzerland due to the increase in the total number of women and girls originally coming form the countries where the practice of FGM/C is traditional.
Primary Ovarian Serous Carcinomas With Extensive Squamous Differentiation : A Case Report and Literature Review
Authors: Sun Yao , Chen Yuezhou , Zhang Xiaofei , Chen Hao , Zhou Feng 
Published: November 2020

Abstract
Background: Primary ovarian serous carcinomas (OSC) with extensive squamous differentiation is a rare, and histological diagnostic criteria and biological behavior have not been fully established. We present an extremely rare case of primary OSC of the ovary with squamous differentiation. Case presentation: A 58-year-old (gravidity 3, parity 2) female was admitted complaining of abdominal distention for 6 months. No apparent tumor in the cervix was found by a physical examination. Serum levels of cancer antigen 125 (CA125) was elevated (2723.0 IU/L). A 7 cm tumor of the left uterine adnexa, a 5 cm tumor of the right adnexa, and a 3 cm tumor of the omentum were found by computed tomography (CT) examination. Histological and immunochemical tests confirmed a diagnosis of OSC with squamous differentiation. Debulking surgery with tumor resection was performed. The patient was subsequently received postoperative chemotherapy.Conclusion: In summary, OSC with extensive squamous differentiation is a rare, and the inter- and intratumor heterogeneity may be the reason for this phenomenon. Histological diagnostic criteria and biological behavior have not been fully established because of the limited data.
Investigation of Cognition Status of Menopausal Hormone Therapy in Medical Institutions Staff
Authors: Xu Guanying , Geng Xinran , Xu Tiantian , Yang Guixia 
Published: November 2020

Abstract
Objective: To investigate the cognition, application and commendation of menopausal hormone therapy (MHT) among medical institution staff with different professional background.Methods: Female staff aged 40-60 years in 4 tertiary hospitals were randomly selected. The participants’ characteristics and the information of cognition, application and recommendation of MHT were collected by questionnaire.Results: A total of 341 people participated in this study, the cognition rate of MHT was 37% and the recommendation rate was 44%.For people with indications of MHT, the utilization rate is 15%, and 84.6% of them have used MHT for less than 3 years. 84.6% of those who did not use MHT considered menopause is not a disease and there was no need to use medication. Compared with nurses, doctors know more about MHT ( P <0.01), and MHT recommendation rate of doctors was higher than that of nurses ( P <0.01). The cognition of MHT were analyzed in menopause group, irregular menstruation group and regular menstruation group, there was no difference was found among these three groups (P >0.05).Conclusion: Strengthening the training of MHT related knowledge in medical institutions, will be helpful to improve the cognition and utilization rate of medical institutions and promote the whole society to study and use MHT.
A viral perspective on worldwide non-pharmaceutical interventions against COVID-19
Authors: Rasigade Jean-Philippe , Barray Anaïs , Shapiro Julie Teresa , Coquisart Charlène , Vigouroux Yoann , Bal Antonin , Destras Grégory , Vanhems Philippe , Lina Bruno , Josset Laurence , Wirth Thierry 
Published: November 2020

Abstract
Quantifying the effectiveness of large-scale non-pharmaceutical interventions (NPIs) against COVID-19 is critical to adapting responses against future waves of the pandemic. Most studies of NPIs thus far have relied on epidemiological data. Here, we report the impact of NPIs on the evolution of SARS-CoV-2, taking the perspective of the virus. We examined how variations through time and space of SARS-CoV-2 genomic divergence rates, which reflect variations of the epidemic reproduction number Rt, can be explained by NPIs and combinations thereof. Based on the analysis of 5,198 SARS-CoV-2 genomes from 57 countries along with a detailed chronology of 9 non-pharmaceutical interventions during the early epidemic phase up to May 2020, we find that home containment (35% Rt reduction) and education lockdown (26%) had the strongest predicted effectiveness. To estimate the cumulative effect of NPIs, we modelled the probability of reducing Rt below 1, which is required to stop the epidemic, for various intervention combinations and initial Rt values. In these models, no intervention implemented alone was sufficient to stop the epidemic for Rt’s above 2 and all interventions combined were required for Rt’s above 3. Our approach can help inform decisions on the minimal set of NPIs required to control the epidemic depending on the current Rt value.
New Protocol to Improve the Antibacterial Activity of Platelet Rich Fibrin – In Vitro Study
Authors: Alhaffar MHD Bahaa Aldin , Shibibe Lama Ayoub , Soukkarieh Chadi , Sulaiman Ali Abou 
Published: November 2020

Abstract
Background: Plasma concentrate products have Rapidly developed during the last few years, and it had significantly affected regenerative medicine because of its specific features which enhance healing and reduce pain after surgeries. this research aims to create an antibiotic releasing biomaterial based on the PRF.Methods: In-Vitro experimental study was conducted, 12 Healthy volunteers were included, each donated (40 ml) of blood. Chukrun’s protocol was used to prepare PRF (3000 rpm, 10m) with additional modification. Bacterial colonies and Miller-Hinton medium was prepared. Two types of bacteria were used for the culturing and incubation (Staphylococcus aureus, Enterococcus faecalis). Three Pharmaceutical forms (PF) of the antibacterial agents (Lincomycin) were incorporated with the PRF. Results: pharmaceutical form had a significant difference on the antibacterial activity of the PRF (P=0.000), ampoule and solution forms had the highest levels of bacterial growth inhibiting, however, powder failed to inhibit bacterial growth. Moreover, no significant difference was noticed between using 0.5ml or 1ml dose of antibiotic (P=339). Conclusion: It is possible to incorporate antibiotic with the PRF, which will improve the antibacterial activity of PRF, creating an ARB that can be used locally adjacent to minor surgery.
Molecular Optimization by Capturing Chemist's Intuition Using Deep Neural Networks
Authors: He Jiazhen , You Huifang , Sandström Emil , Nittinger Eva , Bjerrum Esben , Tyrchan Christian , Czechtizky Werngard , Engkvist Ola 
Published: November 2020

Abstract
A main challenge in drug discovery is finding molecules with a desirable balance of multiple properties. Here, we focus on the task of molecular optimization, where the goal is to optimize a given starting molecule towards desirable properties. This task can be framed as a machine translation problem in natural language processing, where in our case, a molecule is translated into a molecule with optimized properties based on the SMILES representation. Typically, chemists would use their intuition to suggest chemical transformations for the starting molecule being optimized. A widely used strategy is the concept of matched molecular pairs where two molecules differ by a single transformation. We seek to capture the chemist's intuition from matched molecular pairs using machine translation models. Specifically, the sequence-to-sequence model with attention mechanism, and the Transformer model are employed to generate molecules with desirable properties. As a proof of concept, three ADMET properties are optimized simultaneously: logD, solubility, and clearance, which are important properties of a drug. Since desirable properties often vary from project to project, the user-specified desirable property changes are incorporated into the input as an additional condition together with the starting molecules being optimized. Thus, the models can be guided to generate molecules satisfying the desirable properties. Additionally, we compare the two machine translation models based on the SMILES representation, with a graph-to-graph translation model HierG2G, which has shown the state-of-the-art performance in molecular optimization. Our results show that the Transformer can generate more molecules with desirable properties by making small modifications to the given starting molecules, which can be intuitive to chemists. A further enrichment of diverse molecules can be achieved by using an ensemble of models.
Development and Validation of Multicenter Predictive Nomograms for Locally Advanced Pancreatic Cancer after Chemoradiotherapy
Authors: Zhu Xiaofei , Liu Wenyu , Cao Yangsen , Su Tingshi , Zhu Xixu , Wang Yiyang , Ju Xiaoping , Zhao Xianzhi , Jiang Lingong , Ye Yusheng , Qing Shuiwang , Zhang Huojun 
Published: November 2020

Abstract
Background: Due to common practice of hypofractionated radiotherapy in pancreatic cancer and heterogeneous chemotherapy regimens in previous studies, modified nomograms are required. Therefore, we aim to develop and validate prognostic nomograms for locally advanced pancreatic cancer (LAPC) after stereotactic body radiation therapy (SBRT) and chemotherapy.Methods: The development cohort comprised 925 patients with LAPC receiving SBRT and gemcitabine-based chemotherapy in our center, while 297 patients from another two centers formed the validation cohort. Nomograms were created from COX models and internally validated by bootstrap. Model discriminations were evaluated by calibration plots and concordance index (C-index). A decision curve analysis (DCA) was performed to evaluate clinical benefits of nomograms. Additionally, recursive partitioning analysis (RPA) was used for stratifications of survival probability based on the total score of each patient calculated by nomograms.Results: Weight loss, tumor diameter, radiation dose, CA19-9 kinetics after treatment and surgical resection were included in the nomogram for overall survival (OS), while the five factors plus performance status formed the nomogram for progression free survival (PFS). The corrected C-indexes for estimated 1-year and 2-year OS of the development cohort were 0.88 (95% CI: 0.85-0.91) and 0.86 (95% CI: 0.83-0.90). For those of the validation cohort, it was 0.88 (95% CI: 0.82-0.94) and 0.83 (95% CI: 0.74-0.91). Additionally, the corrected C-index for predicted 1-year PFS in the development and validation cohort was 0.83 (95% CI: 0.81-0.86) and 0.82 (95% CI: 0.78-0.87), respectively. The calibration plots showed good agreement of 1- and 2-year OS and 1-year PFS between the estimations and actual observations. Potential clinical benefits were demonstrated with DCA. Additionally, for 1- and 2-year OS and 1-year PFS, patients were stratified into four groups with different survival probability by RPA.Conclusion: The validated nomograms provided useful predictions of OS and PFS for LAPC with chemoradiotherapy.