bluuebunny/crossref_metadata_2025_split huggingface dataset:
Human and Technical Dimensions of Potato Integrated Pest Management Using Farmer Field Schools: International Potato Center and Partners’ Experience With Potato Late Blight Management
Authors: Ortiz Oscar , Nelson Rebecca , Olanya Modesto , Thiele Graham , Orrego Ricardo , Pradel Willy , Kakuhenzire Rogers , Woldegiorgis Gebremedhin , Gabriel Julio , Vallejo Juan , Xie Kaiyun 
Published: January 2019

Abstract
In the 1990s, the integrated pest management (IPM) team for potato late blight (IPM-late blight) at the International Potato Center (CIP) began to address the management of this complex potato disease by combining crop protection with social and behavioral sciences. Since the early 2000s, the team has worked with research and development organizations in countries in Asia, sub-Saharan Africa, and South America to develop farmer discovery-based learning methods using farmer field schools (FFS). The principles of late blight control were more visible and understood by farmers when they could test options for managing late blight, particularly new potato clones with resistance to the disease, for themselves. CIP and partners have since adapted an approach combining FFS and participatory research to facilitate farmers’ access to information, knowledge, and technologies. Several manuals to implement FFS-IPM-late blight with farmers were subsequently developed. Results indicated that farmers using this approach learned new knowledge, assessed new potato clones, and changed crop management practices. Hence farmers realized a 32% average increase in potato productivity and income in Peru; similar changes occurred in other countries. The participatory research and training approach had a significant impact beyond IPM-late blight. In Peru and Bolivia, for example, more than 2,000 FFS were implemented between 2005 and 2012 on IPM for potato, other crops (coffee, cocoa, fruit trees), and livestock. In Uganda and Ethiopia, the experience expanded to potato seed management with the formation of seed cooperatives. Lessons have been drawn from this experience.
An Empirical Implementation of the Ross Recovery Theorem as a Prediction Device
Authors: Audrino Francesco , Huitema Robert , Ludwig Markus 
Published: January 2019

Abstract
Building on the method of Ludwig (2015) to construct robust state price density surfaces from snapshots of option prices, we develop a nonparametric estimation strategy based on the recovery theorem of Ross (2015). Using options on the S&P 500, we then investigate whether or not recovery yields predictive information beyond what can be gleaned from risk-neutral densities. Over the 13 year period from 2000 to 2012, we find that market timing strategies based on recovered moments outperform those based on risk-neutral moments.
PbrMYB169 positively regulates lignification of stone cells in pear fruit
Authors: Xue Cheng , Yao Jia-Long , Xue Yong-Song , Su Guan-Qing , Wang Liang , Lin Li-Kun , Allan Andrew C , Zhang Shao-Ling , Wu Jun 
Published: January 2019

Abstract
Stone cells negatively affect fruit quality because of their firm and lignified cell walls, so are targets for reduction in pear breeding programmes. However, there is only limited knowledge of the molecular mechanisms underlying the formation of stone cells. Here, we show that PbrMYB169, an R2R3 MYB transcription factor, of Pyrus bretschneideri positively regulates lignification of stone cells in pear fruit. PbrMYB169 was shown to be co-expressed with lignin biosynthesis genes during pear fruit development, and this co-expression pattern was coincident with stone cell formation in the fruit of Pyrus bretschneideri ‘Dangshansuli’. The PbrMYB169 expression level was also positively correlated with stone cell content in 36 pear cultivars tested. PbrMYB169 protein significantly activated the promoter of lignin genes C3H1, CCR1, CCOMT2, CAD, 4CL1, 4CL2, HCT2, and LAC18 via binding to AC elements [ACC(T/A)ACC] in these promoters. Furthermore, overexpression of PbrMYB169 in transgenic Arabidopsis plants enhanced the expression of lignin genes, and increased lignin deposition and cell wall thickness of vessel elements, but did not change the ratio of syringyl and guaiacyl lignin monomers. In conclusion, PbrMYB169 appears to be a transcriptional activator of lignin biosynthesis and regulates secondary wall formation in fruit stone cells. This study advances the understanding of the regulation of lignin biosynthesis and provides valuable molecular genetic information for reducing stone cell content in pear fruit.
Innovations in Care Delivery of Stroke from Emergency Medical Services to the Neurointerventional Operating Room
Authors: Greenberg Karen , Hedayat Hirad S , Binning Mandy J , Veznedaroglu Erol 
Published: January 2019

Abstract
Acute ischemic stroke (AIS) and its care is currently one of the most dynamic and evolving illnesses across the globe. Among the most crucial factors in providing the best care to patients are the expedient delivery of thrombolytics and endovascular intervention when indicated. Here, we review our unique model of efficient care centered in our innovative Neurological Emergency Department (Neuro ED). The Neuro ED acts as our hub for EMS communication, imaging, administration of intravenous alteplase, and transition to the Neurointerventional OR. Our structure with its enabling of shortened IV alteplase delivery times and faster door-to-needle (DTN) times may serve as an international model for stroke centers.
Cosmology from cosmic shear power spectra with Subaru Hyper Suprime-Cam first-year data
Authors: Hikage Chiaki , Oguri Masamune , Hamana Takashi , More Surhud , Mandelbaum Rachel , Takada Masahiro , Köhlinger Fabian , Miyatake Hironao , Nishizawa Atsushi J , Aihara Hiroaki , Armstrong Robert , Bosch James , Coupon Jean , Ducout Anne , Ho Paul , Hsieh Bau-Ching , Komiyama Yutaka , Lanusse François , Leauthaud Alexie , Lupton Robert H , Medezinski Elinor , Mineo Sogo , Miyama Shoken , Miyazaki Satoshi , Murata Ryoma , Murayama Hitoshi , Shirasaki Masato , Sifón Cristóbal , Simet Melanie , Speagle Joshua , Spergel David N , Strauss Michael A , Sugiyama Naoshi , Tanaka Masayuki , Utsumi Yousuke , Wang Shiang-Yu , Yamada Yoshihiko 
Published: January 2019

Abstract
We measure cosmic weak lensing shear power spectra with the Subaru Hyper Suprime-Cam (HSC) survey first-year shear catalog covering 137 deg2 of the sky. Thanks to the high effective galaxy number density of ∼17 arcmin−2, even after conservative cuts such as a magnitude cut of i &lt; 24.5 and photometric redshift cut of 0.3 ≤ z ≤ 1.5, we obtain a high-significance measurement of the cosmic shear power spectra in four tomographic redshift bins, achieving a total signal-to-noise ratio of 16 in the multipole range 300 ≤ ℓ ≤ 1900. We carefully account for various uncertainties in our analysis including the intrinsic alignment of galaxies, scatters and biases in photometric redshifts, residual uncertainties in the shear measurement, and modeling of the matter power spectrum. The accuracy of our power spectrum measurement method as well as our analytic model of the covariance matrix are tested against realistic mock shear catalogs. For a flat Λ cold dark matter model, we find $S\,_{8}\equiv \sigma _8(\Omega _{\rm m}/0.3)^\alpha =0.800^{+0.029}_{-0.028}$ for α = 0.45 ($S\,_8=0.780^{+0.030}_{-0.033}$ for α = 0.5) from our HSC tomographic cosmic shear analysis alone. In comparison with Planck cosmic microwave background constraints, our results prefer slightly lower values of S8, although metrics such as the Bayesian evidence ratio test do not show significant evidence for discordance between these results. We study the effect of possible additional systematic errors that are unaccounted for in our fiducial cosmic shear analysis, and find that they can shift the best-fit values of S8 by up to ∼0.6 σ in both directions. The full HSC survey data will contain several times more area, and will lead to significantly improved cosmological constraints.
Emerging roles for chemokines and cytokines as orchestrators of immunopathology in Sjögren’s syndrome
Authors: Blokland Sofie L. M , Flessa Christina-Maria , van Roon Joel A. G , Mavragani Clio P 
Published: January 2019

Abstract
In primary SS (pSS), chemokines and cytokines orchestrate immunopathology driven by a complex network of interacting inflammatory cells. In recent years, the importance of chemotactic and non-chemotactic cytokines that control function, movement and placing of all cells within the inflamed exocrine glands and directing immunopathology has become increasingly clear. This paper reviews the current knowledge on chemokines and focuses on the emerging roles of novel chemotactic and non-chemotactic mediators in pSS. It highlights their contribution to pathogenic processes such as B cell hyperactivity and the formation of ectopic lymphoid structures. To this end, the role of acquired (CXCR5/CCR9 Th-cell–mediated) and innate (inflammasome/IL-1/IL-18–mediated) pathways in steering immunopathology is discussed.
Estradiol and progesterone bioavailability for moderate to severe vasomotor symptom treatment and endometrial protection with the continuous-combined regimen of TX-001HR (oral estradiol and progesterone capsules)
Authors: Lobo Rogerio A. , Liu James , Stanczyk Frank Z. , Constantine Ginger D. , Pickar James H. , Shadiack Annette M. , Bernick Brian , Mirkin Sebastian 
Published: January 2019

Abstract

Objective:
In the REPLENISH trial, women receiving TX-001HR—an oral, softgel capsule, combining 17β-estradiol (E2) and progesterone (E2 mg/P4 mg 1/100, 0.5/100), had significantly improved vasomotor symptoms, while having their endometrium protected from hyperplasia. The objective here was to describe P4 levels sufficient to counteract the potential endometrial effects of 1 or 0.5 mg oral E2 with TX-001HR.

Methods:
In REPLENISH (phase 3; NCT01942668), serum P4, E2, and estrone (E1) levels were characterized in postmenopausal women treated with TX-001HR (E2 mg/P4 mg: 1/100, 0.5/100, [0.5/50, 0.25/50 and placebo not reported here]) at baseline, week 12, and month 12 for P4, and at baseline, weeks 4 and 12, and months 6, 9, and 12 for E2 and E1. In a phase 1 study, pharmacokinetic parameters were assessed after 7 daily doses of oral E2 mg/P4 mg (1/100 and 0.5/100).

Results:
In REPLENISH (n = 1,835), mean P4 levels were 0.39 to 0.55 ng/mL with 100-mg P4 doses; E2 levels were 42.3 to 45.6 pg/mL and 23.0 to 27.4 pg/mL for the 1-mg and 0.5-mg E2 doses, respectively; E1 levels were 214 to 242 pg/mL and 114 to 129 pg/mL for the 1-mg and 0.5-mg E2 doses. In the phase 1 study (n = 40; day 7), mean C
avg for P4 was 0.66 ng/mL with 100-mg P4 doses; E2 was 38.1 pg/mL and 29.2 pg/mL for 1 mg and 0.5 mg E2, respectively; and E1 was 211 and 106 pg/mL for 1 mg and 0.5 mg E2. All three analytes reached steady state within 7 days; accumulation ratios were 1.36 to 1.94.

Conclusions:
P4 levels observed with TX-001HR were similar in the phase 1 and 3 studies, and were associated with no endometrial hyperplasia with either E2 daily dose over 1 year in the REPLENISH phase 3 study, which showed significant improvements in menopausal vasomotor symptoms.
Higher serum levels of vitamin D are associated with lower blood glucose levels
Authors: Valladares Tânia , Cardoso Maria Regina , Aldrighi Jose Mendes 
Published: January 2019

Abstract

Objective:
Vitamin D plays an important role in bone metabolism. There is now evidence that a higher serum level of 25-hydroxyvitamin D (25[OH]D) is associated with a lower risk of developing type 2 diabetes mellitus, because it provides better glycemic control, possibly by promoting greater insulin sensitivity, and also by improving pancreatic beta cell function. The objective of the present study was to evaluate the possible association between 25(OH)D sufficiency and glycemia.

Methods:
This was a cross-sectional study involving 680 women, 35 to 74 years of age, selected through systematic sampling. From each participant, fasting blood samples were collected for the determination of 25(OH)D and glucose levels.

Results:
The mean fasting blood glucose level was 105 mg/dL (range 26-401 mg/dL). Fasting serum levels of 25(OH)D were <30 ng/mL in 65.4% of the participants and <20 ng/mL in 25.6%. A serum 25(OH)D level <30 ng/mL was positively associated with a blood glucose level ≥100 mg/dL (odds ratio [OR] 1.29, 95% confidence interval [CI] 1.05-1.57), as was a serum 25(OH)D level <20 ng/mL (OR 1.25, 95% CI 1.04-1.50).

Conclusions:
Lower serum 25(OH)D concentrations appear to be associated with a high blood glucose levels.
Block HSIC Lasso: model-free biomarker detection for ultra-high dimensional data
Authors: Climente-González Héctor , Azencott Chloé-Agathe , Kaski Samuel , Yamada Makoto 
Published: January 2019

AbstractMotivationFinding nonlinear relationships between biomolecules and a biological outcome is computationally expensive and statistically challenging. Existing methods have crucial drawbacks, among others lack of parsimony, non-convexity, and computational overhead. Here we present the block HSIC Lasso, a nonlinear feature selector that does not present the previous drawbacks.ResultsWe compare the block HSIC Lasso to other state-of-the-art feature selection techniques in synthetic data and real data, including experiments over three common types of genomic data: gene-expression microarrays, single-cell RNA-seq, and GWAS. In all the cases, we observe that features selected by block HSIC Lasso retain more information about the underlying biology than features of other techniques. As a proof of concept, we applied the block HSIC Lasso to a single-cell RNA-seq experiment on mouse hippocampus. We discovered that many genes linked in the past to brain development and function are involved in the biological differences between the types of neurons.AvailabilityBlock HSIC Lasso is implemented in the Python 2/3 package pyHSICLasso, available in Github (https://github.com/riken-aip/pyHSICLasso) and PyPi (https://pypi.org/project/pyHSICLasso).Contactmyamada@i.kyoto-u.ac.jpSupplementary informationSupplementary data are available atBioinformaticsonline.
Cyclin E expression is associated with high levels of replication stress in triple-negative breast cancer
Authors: Llobet Sergi Guerrero , van der Vegt Bert , Jongeneel Evelien , Bense Rico D. , Schröder Carolien P. , Everts Marieke , de Bock Geertruida H. , van Vugt Marcel A.T.M. 
Published: January 2019

AbstractReplication stress entails the improper progression of DNA replication. In cancer cells, including breast cancer cells, an important cause of replication stress is oncogene activation. Importantly, tumors with high levels of replication stress may have different clinical behavior, and high levels of replication stress appear to be a vulnerability of cancer cells, which may be therapeutically targeted by novel molecularly targeted agents. Unfortunately, data on replication stress is largely based on experimental models. Further investigation of replication stress in clinical samples is required to optimally implement novel therapeutics. To uncover the relation between oncogene expression, replication stress and clinical features of breast cancer subtypes, we immunohistochemically analyzed the expression of a panel of oncogenes (Cdc25a, Cyclin E and c-Myc) and markers of replication stress (phospho-Ser33-RPA32 and γ-H2AX) in treatment-naive breast tumor tissues (n=384). Triple-negative breast cancers (TNBCs) exhibited the highest levels of phospho-Ser33-RPA32 (P<0.001 for all tests) and γ-H2AX (P<0.05 for all tests). Moreover, expression levels of Cyclin E (P<0.001 for all tests) and c-Myc (P<0.001 for all tests) were highest in TNBCs. Expression of Cyclin E positively correlated with phospho-RPA32 (Spearman correlation r=0.37, P<0.001) and γ-H2AX (Spearman correlation r=0.63, P<0.001). Combined, these data indicate that replication stress is predominantly observed in TNBCs, and is associated with expression levels of Cyclin E. These results indicate that Cyclin E overexpression may be used as a biomarker for patient selection in the clinical evaluation of drugs that target the DNA replication stress response.
Physicochemical Properties of Chromosomes in Live Cells Characterized by Label-Free Imaging and Fluorescence Correlation Spectroscopy
Authors: Kim Tae-Keun , Lee Byong-Wook , Fujii Fumihiko , Lee Kee-Hang , Park YongKeun , Kim Jun Ki , Pack Chan-Gi 
Published: January 2019

AbstractThe cell nucleus is a three-dimensional, dynamic organelle that is organized into many subnuclear bodies, such as chromatin and nucleoli. The structure and function of these bodies is maintained by diffusion and interactions between related factors as well as dynamic and structural changes. Recent studies using fluorescent microscopic techniques suggest that protein factors can access and are freely mobile in mitotic chromosomes, despite their densely packed structure. However, the physicochemical properties of the chromosome itself during cell division are not yet fully understood. Physical parameters, such as the refractive index (RI), volume of the mitotic chromosome, and diffusion coefficients of fluorescent probes inside the chromosome were quantified using an approach combining label-free optical diffraction tomography with complementary confocal laser scanning microscopy and fluorescence correlation spectroscopy. Variance in these parameters correlated among various osmotic conditions, suggesting that changes in RI are consistent with those in the diffusion coefficient for mitotic chromosomes and cytosol. Serial RI tomography images of chromosomes in live cells during mitosis were compared with three-dimensional confocal micrographs to demonstrate that compaction and decompaction of chromosomes induced by osmotic change were characterized by linked changes in chromosome RI, volume, and the mobility of fluorescent proteins.
Effectiveness of a mobile antiretroviral pharmacy and HIV care intervention on the continuum of HIV care in rural Uganda
Authors: Bajunirwe Francis , Ayebazibwe Nicholas , Mulogo Edgar , Eng Maria , McGrath Janet , Kaawa-Mafigiri David , Mugyenyi Peter , Sethi Ajay K. 
Published: January 2019

AbstractIntroductionAdherence to antiretroviral therapy (ART) is critical in order to achieve viral suppression, one of three UNAIDS targets set for achievement before 2020. One of the main barriers to adherence is the long distance between patient residences and healthcare facilities. We designed an intervention, Mobile Antiretroviral Therapy and HIV care (MAP-HC) in rural southwestern Uganda aimed to reduce travel distance and hypothesized that MAP-HC would improve ART adherence and rates of viral load suppression.MethodsThe study was conducted at two sites, Kitagata and Itojo Hospitals, and these are public health facilities located in rural southwestern Uganda. Patients who lived >5km from the hospital were provided the option to participate. For each hospital, we identified 4 health centres in the catchment area to serve as site for the mobile pharmacy. Each site was visited once a month to provide ART refills, adherence counseling and treatment of other illnesses. We measured patient waiting time, adherence and viral load suppression before and after the intervention.ResultsWe conducted baseline assessment among 292 patients at the two hospitals. The mean waiting time at Kitagata Hospital changed from 4.48 hours before the intervention but increased to 4.76 hours after the intervention (p=0.13). The proportion of patients who missed an ART dose in the last 30 days dropped from 20% at baseline to 8.5% at 12 months after the intervention (p=0.009). The proportion of patients with detectable viral load from 19.9% to 7.4% after the intervention (p=0.001).ConclusionsOur study has showed that a mobile pharmacy intervention in rural Uganda is feasible and resulted in improvement in adherence and viral load suppression. Although it did not reduce patient waiting time at the clinic, we recommend a scale-up of this intervention in rural areas where patients face challenges of transportation to the clinic.
Characteristics of Beta Waveform Shape in Parkinson’s Disease Detected with Scalp Electroencephalography
Authors: Jackson Nicko , Cole Scott R. , Voytek Bradley , Swann Nicole C. 
Published: January 2019

AbstractNeural activity in the beta frequency range (13-30 Hz) is excessively synchronized in Parkinson’s Disease (PD). Previous work using invasive intracranial recordings and non-invasive scalp electroencephalography (EEG) has shown that correlations between beta phase and broadband gamma amplitude (i.e., phase-amplitude coupling) are elevated in PD, perhaps a reflection of this synchrony. Recently, it has also been shown, in invasive human recordings, that nonsinusoidal features of beta oscillation shape also characterize PD. Here we show that these features of beta waveform shape also distinguish PD patients on and off medication using non-invasive recordings in a dataset of 15 PD patients with resting scalp EEG. Specifically, beta oscillations over sensorimotor electrodes in PD patients off medication had greater sharpness asymmetry and steepness asymmetry than on medication (sign rank, p=0.006, p=0.003 respectively). We also showed that beta oscillations over sensorimotor cortex most often had a canonical shape and that using this prototypical shape as an inclusion criterion increased the effect size of our findings. Together our findings suggest that novel ways of measuring beta synchrony that incorporate waveform shape could improve detection of PD pathophysiology in non-invasive recordings.