bluuebunny/crossref_metadata_2025_split huggingface dataset:
Clinical, virological and epidemiological characterization of dengue outbreak in Myanmar, 2015
Authors: KYAW A. K. , NGWE TUN M. M. , MOI M. L. , NABESHIMA T. , SOE K. T. , THWE S. M. , MYINT A. A. , MAUNG K. T. T. , AUNG W. , HAYASAKA D. , BUERANO C. C. , THANT K. Z. , MORITA K. 
Published: April 2017

SUMMARYHospital-based surveillance was conducted at two widely separated regions in Myanmar during the 2015 dengue epidemic. Acute phase serum samples were collected from 332 clinically diagnosed dengue patients during the peak season of dengue cases. Viremia levels were measured by quantitative real-time PCR and plaque assays using FcγRIIA-expressing and non-FcγRIIA-expressing BHK cells to specifically determine the infectious virus particles. By serology and molecular techniques, 280/332 (84·3%) were confirmed as dengue patients. All four serotypes of dengue virus (DENV) were isolated from among 104 laboratory-confirmed patients including two cases infected with two DENV serotypes. High percentage of primary infection was noted among the severe dengue patients. Patients with primary infection or DENV IgM negative demonstrated significantly higher viral loads but there was no significant difference among the severity groups. Viremia levels among dengue patients were notably high for a long period which was assumed to support the spread of the virus by the mosquito vector during epidemic. Phylogenetic analyses of the envelope gene of the epidemic strains revealed close similarity with the strains previously isolated in Myanmar and neighboring countries. DENV-1 dominated the epidemic in 2015 and the serotype (except DENV-3) and genotype distributions were similar in both study sites.
Transcatheter closure of a residual aorto-left ventricular tunnel: report of a case with a 6-year follow-up
Authors: Djukic Milan , Djordjevic Stefan A. , Dähnert Ingo 
Published: April 2017

AbstractAorto-left ventricular tunnel is an exceedingly rare congenital cardiac defect. Early surgical closure is the treatment of choice. Residual or recurrent tunnel and aortic valve insufficiency are well-recognised complications after surgical repair. In this article, we report on successful transcatheter closure of a residual aorto-left ventricular tunnel using an Amplatzer duct occluder in a 7-year-old boy. The outcome after 6 years of follow-up is encouraging.
Pokémon Go: digital health interventions to reduce cardiovascular risk
Authors: Krittanawong Chayakrit , Aydar Mehmet , Kitai Takeshi 
Published: April 2017

AbstractPhysical activity is associated with a lower risk of coronary heart disease/cardiovascular disease mortality, and current guidelines recommend physical activity for primary prevention in healthy individuals and secondary prevention in patients with coronary heart disease/cardiovascular disease. Over the last decade, playing classic video games has become one of the most popular leisure activities in the world, but is associated with a sedentary lifestyle. In the new era of rapidly evolving augmented reality technology, Pokémon Go, a well-known augmented reality game, may promote physical activity and prevent cardiovascular disease risks – that is, diabetes, obesity, and hypertension. Pokémon Go makes players willing to be physically active for regular and long periods of time. We report on an assessment of regular walking and playing Pokémon Go by performing data mining in Twitter.
Differences in meal patterns and timing with regard to central obesity in the ANIBES (‘Anthropometric data, macronutrients and micronutrients intake, practice of physical activity, socioeconomic data and lifestyles in Spain’) Study
Authors: Aparicio Aránzazu , Rodríguez-Rodríguez Elena E , Aranceta-Bartrina Javier , Gil Ángel , González-Gross Marcela , Serra-Majem Lluis , Varela-Moreiras Gregorio , Ortega Rosa Maria 
Published: April 2017

AbstractObjectiveTo study the association of meal patterns and timing with central obesity to identify the best dietary strategies to deal with the increasing obesity prevalence.DesignA cross-sectional study performed on data from a representative sample of the Spanish population. Height and waist circumference were measured using standardized procedures and waist-to-height ratio (WHtR) was calculated. The sample was divided into those without central obesity (WHtR<0·5) and those with central obesity (WHtR≥0·5).SettingANIBES (‘Anthropometric data, macronutrients and micronutrients intake, practice of physical activity, socioeconomic data and lifestyles in Spain’) Study.SubjectsAdults aged 18–64 years (n1655; 798 men and 857 women).ResultsA higher percentage of people ate more than four meals daily in the group without central obesity and those with central obesity more frequently skipped the mid-afternoon snack than those without. Breakfasts containing >25 % of total energy intake and lunches containing >35 % of total energy intake were associated with increased likelihood of central obesity (OR=1·874, 95 % CI 1·019, 3·448;P<0·05 and OR=1·693, 95 % CI 1·264, 2·268;P<0·001, respectively). On the contrary, mid-morning snacks and mid-afternoon snacks containing >15 % of total energy were associated with decreased likelihood of central obesity (OR=0·477, 95 % CI 0·313, 0·727;P<0·001 and OR=0·650, 95 % CI 0·453, 0·932;P<0·05, respectively). The variety of cereals, wholegrain cereals and dairy was higher in the population without central obesity.ConclusionsOur results suggest that ‘what and when we eat’ should be considered dietary strategies to reduce central obesity.
Implementation, utilization and influence of a community-based participatory nutrition promotion programme in rural Ethiopia: programme impact pathway analysis
Authors: Kang Yunhee , Cha Seungman , Yeo Sarah , Christian Parul 
Published: April 2017

AbstractObjectiveA community-based participatory nutrition promotion (CPNP) programme, involving a 2-week group nutrition session, attempted to improve child feeding and hygiene. The implementation, utilization and influence of the CPNP programme were examined by programme impact pathway (PIP) analysis.DesignFive CPNP programme components were evaluated: (i) degree of implementation; (ii) participants’ perception of the nutrition sessions; (iii) participants’ message recall; (iv) utilization of feeding and hygiene practices at early programme stage; and (v) participants’ engagement in other programmes.SettingHabro and Melka Bello districts, Ethiopia.SubjectsRecords of 372 nutrition sessions, as part of a cluster-randomized trial, among mothers (n876 in intervention area,n914 in control area) from a household survey and CPNP participants (n197) from a recall survey.ResultsOverall, most activities related to nutrition sessions were successfully operated with high fidelity (>90 %), but a few elements of the protocol were only moderately achieved. The recall survey among participants showed a positive perception of the sessions (~90 %) and a moderate level of message recall (~65 %). The household survey found that the CPNP participants had higher minimum dietary diversity at the early stage (34·0v. 19·9 %,P=0·01) and a higher involvement in the Essential Nutrition Action (ENA) programme over a year of follow-up (28·2v. 18·3 %;P<0·0001) compared with non-participants within the intervention area.ConclusionsOur PIP analysis suggests that CPNP was feasibly implemented, promoted a sustained utilization of proper feeding behaviours, and enhanced participation in the existing ENA programme. These findings provide a possible explanation to understanding CPNP’s effectiveness.
Widening perspectives: the intellectual and social benefits of astrobiology (regardless of whether extraterrestrial life is discovered or not)
Authors: Crawford I.A. 
Published: April 2017

AbstractAstrobiology is usually defined as the study of the origin, evolution, distribution and future of life in the Universe. As such it is inherently interdisciplinary and cannot help but engender a worldview infused by cosmic and evolutionary perspectives. Both these attributes of the study of astrobiology are, and will increasingly prove to be, beneficial to society regardless of whether extraterrestrial life is discovered or not.
Genetic structure and diversity of western flower thrips, Frankliniella occidentalis in a French bean agroecosystem of Kenya
Authors: Hondelmann P. , Nyasani J.O. , Subramanian S. , Meyhöfer R. 
Published: April 2017

AbstractWestern flower thrips (WFT) (Frankliniella occidentalis) is an introduced pest that harms French bean production in Kenya and other countries. Since new WFT management approaches are being developed, a closer look at the genetic makeup of WFT populations can give new insights into source habitats, crop colonization patterns or host plant preferences, which are prerequisites for integrated pest management (IPM) strategies. For this purpose, we used six microsatellite loci to analyse the genetic structure, diversity and gene flow of WFT sampled on French beans, intercrops and weeds in Kenyan French bean production areas. The results of this preliminary study indicate that the available microsatellites are sufficiently polymorphic for more detailed analyses on local dispersal patterns of WFT in Kenya. Even with the limited data set, the results reveal thatF. occidentalispopulations show considerable genetic differentiation between host plant species but not between regions, which suggests reduced gene flow and a possible development of biotypes. Possible consequences of the results on IPM are discussed.
Inhibition of DNA2 nuclease as a therapeutic strategy targeting replication stress in cancer cells
Authors: Kumar S , Peng X , Daley J , Yang L , Shen J , Nguyen N , Bae G , Niu H , Peng Y , Hsieh H-J , Wang L , Rao C , Stephan C C , Sung P , Ira G , Peng G 
Published: April 2017

AbstractReplication stress is a characteristic feature of cancer cells, which is resulted from sustained proliferative signaling induced by activation of oncogenes or loss of tumor suppressors. In cancer cells, oncogene-induced replication stress manifests as replication-associated lesions, predominantly double-strand DNA breaks (DSBs). An essential mechanism utilized by cells to repair replication-associated DSBs is homologous recombination (HR). In order to overcome replication stress and survive, cancer cells often require enhanced HR repair capacity. Therefore, the key link between HR repair and cellular tolerance to replication-associated DSBs provides us with a mechanistic rationale for exploiting synthetic lethality between HR repair inhibition and replication stress. DNA2 nuclease is an evolutionarily conserved essential enzyme in replication and HR repair. Here we demonstrate that DNA2 is overexpressed in pancreatic cancers, one of the deadliest and more aggressive forms of human cancers, where mutations in the KRAS are present in 90–95% of cases. In addition, depletion of DNA2 significantly reduces pancreatic cancer cell survival and xenograft tumor growth, suggesting the therapeutic potential of DNA2 inhibition. Finally, we develop a robust high-throughput biochemistry assay to screen for inhibitors of the DNA2 nuclease activity. The top inhibitors were shown to be efficacious against both yeast Dna2 and human DNA2. Treatment of cancer cells with DNA2 inhibitors recapitulates phenotypes observed upon DNA2 depletion, including decreased DNA double strand break end resection and attenuation of HR repair. Similar to genetic ablation of DNA2, chemical inhibition of DNA2 selectively attenuates the growth of various cancer cells with oncogene-induced replication stress. Taken together, our findings open a new avenue to develop a new class of anticancer drugs by targeting druggable nuclease DNA2. We propose DNA2 inhibition as new strategy in cancer therapy by targeting replication stress, a molecular property of cancer cells that is acquired as a result of oncogene activation instead of targeting currently undruggable oncoprotein itself such as KRAS.
p16 controls epithelial cell growth and suppresses carcinogenesis through mechanisms that do not require RB1 function
Authors: Sen M , Akeno N , Reece A , Miller A L , Simpson D S , Wikenheiser-Brokamp K A 
Published: April 2017

AbstractThe p16/RB1 tumor suppressor pathway is inactivated in the vast majority, if not all, human cancers. The current paradigm is that p16 and RB1 function in a linear pathway to suppress tumorigenesis; however p16 is preferentially lost in human cancers suggesting that p16 has critical tumor suppressive functions not mediated through RB1. Carcinomas arise from transformed epithelial cells and account for 80% of adult malignancies highlighting the need to understand p16/RB1 pathway function in organ epithelia. Lung cancer is the leading cause of cancer deaths and is associated with p16/RB1 pathway deregulation. We demonstrate that p16 is upregulated in the lung epithelium after Rb1 ablation in genetically engineered mouse models. In contrast to fibroblasts, loss of RB1 family proteins, p107 or p130, did not result in p16 induction, demonstrating that p16 suppression is a unique RB1 pocket protein function in the lung epithelium in vivo. p16 upregulation did not induce cellular senescence but rather promoted survival of RB1-deficient lung epithelial progenitor cells. Mechanistic studies show that p16 protects RB1-deficient cells from DNA damage. Consequently, additional loss of p16 led to genetic instability and increased susceptibility to cellular immortalization and transformation. Mice with combined RB1/p16-deficient lungs developed lung tumors including aggressive metastatic lung cancers. These studies identify p16 loss as a molecular event that causes genetic instability and directly demonstrate that p16 protects against DNA damage in the absence of RB1 function providing an explanation for why p16 is preferentially targeted in human cancers.
Opposing activities of oncogenic MIR17HG and tumor suppressive MIR100HG clusters and their gene targets regulate replicative senescence in human adult stem cells
Authors: Lopez Mary F. , Niu Ping , Wang Lu , Vogelsang Maryann , Gaur Meenakshi , Krastins Bryan , Zhao Yueqiang , Smagul Aibek , Nussupbekova Aliya , Akanov Aikan A. , Jordan I. King , Lunyak Victoria V. 
Published: April 2017

AbstractGrowing evidence suggests that many diseases of aging, including diseases associated with robust changes and adipose deports, may be caused by resident adult stem cell exhaustion due to the process called cellular senescence. Understanding how microRNA pathways can regulate cellular senescence is crucial for the development of novel diagnostic and therapeutic strategies to combat these pathologies. Herein, using integrated transcriptomic and semi-quantitative proteomic analysis, we provide a system level view of the regulation of human adipose-derived stem cell senescence by a subset of mature microRNAs (termed senescence-associated-microRNAs) produced by biogenesis of oncogenic MIR17HG and tumor-suppressive MIR100HG clusters. We demonstrate functional significance of these mature senescence-associated-microRNAs in the process of replicative senescence of human adipose-derived stem cells ex-vivo and define a set of senescence-associated-microRNA gene targets that are able to elicit, modulate and, most importantly, balance intimate connections between oncogenic and senescent events.
Fine cophasing of segmented aperture telescopes with ZELDA, a Zernike wavefront sensor in the diffraction-limited regime
Authors: Janin-Potiron P. , N’Diaye M. , Martinez P. , Vigan A. , Dohlen K. , Carbillet M. 
Published: April 2017

Context. Segmented aperture telescopes require an alignment procedure with successive steps from coarse alignment to monitoring process in order to provide very high optical quality images for stringent science operations such as exoplanet imaging. The final step, referred to as fine phasing, calls for a high sensitivity wavefront sensing and control system in a diffraction-limited regime to achieve segment alignment with nanometric accuracy. In this context, Zernike wavefront sensors represent promising options for such a calibration. A concept called the Zernike unit for segment phasing (ZEUS) was previously developed for ground-based applications to operate under seeing-limited images. Such a concept is, however, not suitable for fine cophasing with diffraction-limited images.
Aims. We revisit ZELDA, a Zernike sensor that was developed for the measurement of residual aberrations in exoplanet direct imagers, to measure segment piston, tip, and tilt in the diffraction-limited regime.
Methods. We introduce a novel analysis scheme of the sensor signal that relies on piston, tip, and tilt estimators for each segment, and provide probabilistic insights to predict the success of a closed-loop correction as a function of the initial wavefront error.
Results. The sensor unambiguously and simultaneously retrieves segment piston and tip-tilt misalignment. Our scheme allows for correction of these errors in closed-loop operation down to nearly zero residuals in a few iterations. This sensor also shows low sensitivity to misalignment of its parts and high ability for operation with a relatively bright natural guide star.
Conclusions. Our cophasing sensor relies on existing mask technologies that make the concept already available for segmented apertures in future space missions.
Meningioma of the Fourth Ventricle: Literature Review
Authors: Polverini Allan Dias , Sola Rodrigo de Almeida Simon , Bortoluzzi Guilherme Fonseca , Lombardi Ismael Augusto Silva , Picone Junior Giusepe , de Almeida Junior Carlos Roberto , Clara Carlos Afonso 
Published: April 2017

AbstractMeningiomas are among the most common central nervous system tumors, with an incidence that ranges from 15% to 40% of intracranial tumors. Of these, only 0.5% to 3% are intraventricular, and the rarest of them occurs in the fourth ventricle.Fourth-ventricle meningiomas originate generally from the choroid plexus and have no dural adhesions. Most often, they manifest in young patients, around 41 years of age, with a possible predominance in females, through intracranial hypertension and cerebellar syndromes. The treatment consists of surgical resection, which commonly presents good results due to the characteristics of the tumor. So, for better preoperative planning, the radiological differentiation of the most frequent tumors in this location is important.The most common histologic subtypes are fibroblastic and meningothelial, both grade I according to the World Health Organization (WHO), although there are reports of tumors of grades II and III.We report a case of meningioma of the fourth ventricle operated in our institution, and we have conducted a literature review, through which we found that 57 cases have been reported so far, with the first one reported in 1938.
A new method to study the change of miRNA–mRNA interactions due to environmental exposures
Authors: Petralia Francesca , Aushev Vasily N , Gopalakrishnan Kalpana , Kappil Maya , W Khin Nyan , Chen Jia , Teitelbaum Susan L , Wang Pei 
Published: April 2017

Abstract

Motivation
Integrative approaches characterizing the interactions among different types of biological molecules have been demonstrated to be useful for revealing informative biological mechanisms. One such example is the interaction between microRNA (miRNA) and messenger RNA (mRNA), whose deregulation may be sensitive to environmental insult leading to altered phenotypes. The goal of this work is to develop an effective data integration method to characterize deregulation between miRNA and mRNA due to environmental toxicant exposures. We will use data from an animal experiment designed to investigate the effect of low-dose environmental chemical exposure on normal mammary gland development in rats to motivate and evaluate the proposed method.

Results
We propose a new network approach—integrative Joint Random Forest (iJRF), which characterizes the regulatory system between miRNAs and mRNAs using a network model. iJRF is designed to work under the high-dimension low-sample-size regime, and can borrow information across different treatment conditions to achieve more accurate network inference. It also effectively takes into account prior information of miRNA–mRNA regulatory relationships from existing databases. When iJRF is applied to the data from the environmental chemical exposure study, we detected a few important miRNAs that regulated a large number of mRNAs in the control group but not in the exposed groups, suggesting the disruption of miRNA activity due to chemical exposure. Effects of chemical exposure on two affected miRNAs were further validated using breast cancer human cell lines.

Availability and implementation
R package iJRF is available at CRAN.

Supplementary information
Supplementary data are available at Bioinformatics online.
Exploiting sequence-based features for predicting enhancer–promoter interactions
Authors: Yang Yang , Zhang Ruochi , Singh Shashank , Ma Jian 
Published: April 2017

Abstract

Motivation
A large number of distal enhancers and proximal promoters form enhancer–promoter interactions to regulate target genes in the human genome. Although recent high-throughput genome-wide mapping approaches have allowed us to more comprehensively recognize potential enhancer–promoter interactions, it is still largely unknown whether sequence-based features alone are sufficient to predict such interactions.

Results
Here, we develop a new computational method (named PEP) to predict enhancer–promoter interactions based on sequence-based features only, when the locations of putative enhancers and promoters in a particular cell type are given. The two modules in PEP (PEP-Motif and PEP-Word) use different but complementary feature extraction strategies to exploit sequence-based information. The results across six different cell types demonstrate that our method is effective in predicting enhancer–promoter interactions as compared to the state-of-the-art methods that use functional genomic signals. Our work demonstrates that sequence-based features alone can reliably predict enhancer–promoter interactions genome-wide, which could potentially facilitate the discovery of important sequence determinants for long-range gene regulation.

Availability and Implementation
The source code of PEP is available at: https://github.com/ma-compbio/PEP.

Supplementary information
Supplementary data are available at Bioinformatics online.