bluuebunny/crossref_metadata_2025_split huggingface dataset:
Are Flexible Exchange Rate Regimes more Volatile? Panel GARCH Evidence for the G7 and Latin America
Authors: Cermeño Rodolfo , Sanin María Eugenia 
Published: April 2015

AbstractThis paper investigates empirically the relationship between exchange rate (ER) regimes and volatility of real exchange rate depreciation (RERD), comparing the G7 and 17 Latin American (LA17) countries, during 1970–2010. We estimate a panel autoregressive model with generalized autoregressive conditional heteroskedasticity (GARCH) errors and regime‐specific effects on both the conditional mean and conditional variance. For the G7, we find that, relative to the fixed ER regime, only the freely floating regime shows higher RERD volatility; under the managed floating regime the RERD is equally volatile and under the crawling peg it is actually less volatile. Instead, in the case of the LA17, more flexible ER regimes are associated with more volatile RERD rates, with higher volatility under the managed floating regime than under the crawling peg and with extremely high volatility under the “freely falling” ER regime.
Firms' Innovation, Public Financial Support, and Total Factor Productivity: The Case of Manufactures in Peru
Authors: Tello Mario D. 
Published: April 2015

AbstractBased upon an adjusted Crepon–Duguet–Mairesse (CDM) model, this paper analyzes the relationship between investment intensity, public financial support, innovation, and total factor productivity (TFP) for a sample of manufacturing firms of Peru with data obtained from the 2004 survey of science, technology, and innovation (STI) activities. The estimation of the model indicates that large firms are more likely to invest in STI activities and firms' size increases the probability of producing technological inovation (TI) and non‐technological innovation (NTI). STI firms' investment intensity and public financial support have also helped manufacturing firms to increase the probability of producing TI outcomes. Further, such support may have increased firms' investment on STI activities. The innovation effects on TFP, however, were statistically not clear or robust. Thus, whereas investment intensity did increase firms' TPF in low‐tech manufacturing firms, this is not the case for high‐tech firms. For this group of firms, relatively high capital–labor ratio and the availability of a high level of human capital seem to promote higher levels of TFP.
Internet Technology and the Extensive Margin of Trade: Evidence from eBay in Emerging Economies
Authors: Lendle Andreas , Vézina Pierre‐Louis 
Published: April 2015

AbstractOnline platforms such as eBay offer technologies that make it easier for firms to export. This paper dissects a new firm‐level dataset that covers sales made through eBay by sellers based in 21 emerging economies to provide a new lens through which to look at the effect of trade costs on the extensive margin of trade. Comparing eBay sellers with “offline” firm‐level data from the World Bank's Exporter Dynamics Database allows us to test whether the observed trade patterns on eBay fit with the trade‐liberalization predictions of heterogeneous‐firm models. We find that eBay firms export to more destinations, suggesting low destination‐specific fixed costs on eBay. We then show that the distribution of export destinations across eBay sellers is well approximated by a balls‐and‐bins model of frictionless trade, suggesting eBay indeed lowers fixed export costs. Finally, we compare the gravity of eBay with that of offline trade and find geographic distance, languages, and trade agreements to matter less for online trade.
Technical Note: On the proton range and nuclear interactions in compounds and mixtures
Authors: Rasouli Fatemeh S. , Masoudi S. Farhad , Jette David 
Published: April 2015

Purpose:Range and probability of nonelastic nuclear interactions (NNIs) for protons can be found only for a limited number of compounds and mixtures in nuclear data tables, and the proton‐related analytical studies are therefore restricted to those materials for which the data are provided in these documents. In this paper, the authors present general solutions for calculating the proton range and probability of NNIs for desired compounds and mixtures.Methods:Benefiting from the Bragg–Kleeman approximation of mass stopping power, the authors derive a concise formula for calculating the proton range in materials with arbitrary number of constituent elements. Additionally, the authors propose another relation for obtaining the probability of undergoing NNIs which is suggested to be additive.Results:The examination of the formula presented shows that the authors’ method can be considered as general solutions for analytical evaluation of the range in compounds and mixtures. The formula proposed for probability of NNIs is valid for almost every compound except for those materials containing H. It is shown that this formula can be modified so that it covers these materials.Conclusions:The authors present a general analytical method for calculating the range and probability of NNIs for protons which are mathematically easy to handle and valid for desired compounds or mixtures composed of an arbitrary number of constituent elements, including materials of interest for proton radiotherapy purposes.
Automated prostate cancer detection using T2‐weighted and high‐b‐value diffusion‐weighted magnetic resonance imaging
Authors: Kwak Jin Tae , Xu Sheng , Wood Bradford J. , Turkbey Baris , Choyke Peter L. , Pinto Peter A. , Wang Shijun , Summers Ronald M. 
Published: April 2015

Purpose:The authors propose a computer‐aided diagnosis (CAD) system for prostate cancer to aid in improving the accuracy, reproducibility, and standardization of multiparametric magnetic resonance imaging (MRI).Methods:The proposed system utilizes two MRI sequences [T2‐weighted MRI and high‐b‐value (b = 2000 s/mm2) diffusion‐weighted imaging (DWI)] and texture features based on local binary patterns. A three‐stage feature selection method is employed to provide the most discriminative features. The authors included a total of 244 patients. Training the CAD system on 108 patients (78 MR‐positive prostate cancers and 105 benign MR‐positive lesions), two validation studies were retrospectively performed on 136 patients (68 MR‐positive prostate cancers, 111 benign MR‐positive lesions, and 117 MR‐negative benign lesions).Results:In distinguishing cancer from MR‐positive benign lesions, an area under receiver operating characteristic curve (AUC) of 0.83 [95% confidence interval (CI): 0.76–0.89] was achieved. For cancer vs MR‐positive or MR‐negative benign lesions, the authors obtained an AUC of 0.89 AUC (95% CI: 0.84–0.93). The performance of the CAD system was not dependent on the specific regions of the prostate, e.g., a peripheral zone or transition zone. Moreover, the CAD system outperformed other combinations of MRI sequences: T2W MRI, high‐b‐value DWI, and the standard apparent diffusion coefficient (ADC) map of DWI.Conclusions:The novel CAD system is able to detect the discriminative texture features for cancer detection and localization and is a promising tool for improving the quality and efficiency of prostate cancer diagnosis.
Draft Genome Sequence of
Micrococcus
sp. Strain MS-AsIII-49, an Arsenate-Reducing Isolate from Tropical Metal-Rich Sediment
Authors: Costa Patrícia S. , Tschoeke Diogo A. , Silva Bruno S. O. , Thompson Fabiano , Reis Mariana P. , Chartone-Souza Edmar , Nascimento Andréa M. A. 
Published: April 2015

ABSTRACT

Micrococcus
sp. strain MS-AsIII-49, which was isolated from a tropical metal-polluted stream sediment in Brazil, has the ability to reduce AsV to AsIII. Analysis of its draft genome revealed 186 contigs with a total size of 2,440,924 bp encoding several metal resistance genes.
Complete Genome Sequences of Two Helicobacter pylori Strains from a Canadian Arctic Aboriginal Community
Authors: Kersulyte Dangeruta , Bertoli M. Teresita , Tamma Sravya , Keelan Monika , Munday Rachel , Geary Janis , Veldhuyzen van Zanten Sander , Goodman Karen J. , Berg Douglas E. 
Published: April 2015

ABSTRACT

We report here the complete genome sequences of two Amerind
Helicobacter pylori
strains from Aklavik, Northwest Territories, Canada. One strain contains extra iron-cofactored urease genes and ~140 rearrangements in its chromosome relative to other described strains (typically differing from one another by <10 rearrangements), suggesting that it represents a novel lineage of
H. pylori
.
Two Draft Genome Sequences of a New Serovar of Salmonella enterica, Serovar Lubbock
Authors: Bugarel Marie , den Bakker Henk C. , Nightingale Kendra K. , Brichta-Harhay Dayna M. , Edrington Thomas S. , Loneragan Guy H. 
Published: April 2015

ABSTRACT

Salmonella enterica
is principally a foodborne pathogen that shows considerable serovar diversity. In this report, we present two draft genome sequences of
Salmonella enterica
subsp.
enterica
serovar Lubbock, a novel serovar.
Complete Genome Sequence of Mycoplasma arginini Strain HAZ 145_1 from Bovine Mastitic Milk in Japan
Authors: Hata Eiji 
Published: April 2015

ABSTRACT

Mycoplasma arginini
is a species sometimes isolated from bovine specimens, mastitic milk, etc. Its pathogenicity against cows, however, is unspecific, unlike other bovine mycoplasmas. Its whole-genome sequence is needed to comprehend its real image. We present here the 678,592-bp complete genome sequence of
M. arginini
strain HAZ 145_1.
Draft Genome Sequence of an Anaerobic Ammonium-Oxidizing Bacterium, “
Candidatus
Brocadia sinica”
Authors: Oshiki Mamoru , Shinyako-Hata Kaori , Satoh Hisashi , Okabe Satoshi 
Published: April 2015

ABSTRACT

A draft genome sequence of an anaerobic ammonium-oxidizing (anammox) bacterium, “
Candidatus
Brocadia sinica,” was determined by pyrosequencing and by screening a fosmid library. A 4.07-Mb genome sequence comprising 3 contigs was assembled, in which 3,912 gene-coding regions, 47 tRNAs, and a single
rrn
operon were annotated.
Draft Genome Sequence of Brevibacterium linens AE038-8, an Extremely Arsenic-Resistant Bacterium
Authors: Maizel Daniela , Utturkar Sagar M. , Brown Steven D. , Ferrero Marcela A. , Rosen Barry P. 
Published: April 2015

ABSTRACT

To understand the arsenic biogeocycles in the groundwaters at Tucumán, Argentina, we isolated
Brevibacterium linens
sp. strain AE38-8, obtained from arsenic-contaminated well water. This strain is extremely resistant to arsenicals and has arsenic resistance (
ars
) genes in its genome. Here, we report the draft genome sequence of
B. linens
AE38-8.
Teaching Recommender Systems at Large Scale
Authors: Konstan Joseph A. , Walker J. D. , Brooks D. Christopher , Brown Keith , Ekstrand Michael D. 
Published: April 2015

In the fall of 2013, we offered an open online Introduction to Recommender Systems through Coursera, while simultaneously offering a for-credit version of the course on-campus using the Coursera platform and a flipped classroom instruction model. As the goal of offering this course was to experiment with this type of instruction, we performed extensive evaluation including surveys of demographics, self-assessed skills, and learning intent; we also designed a knowledge-assessment tool specifically for the subject matter in this course, administering it before and after the course to measure learning, and again 5 months later to measure retention. We also tracked students through the course, including separating out students enrolled for credit from those enrolled only for the free, open course.
Students had significant knowledge gains across all levels of prior knowledge and across all demographic categories. The main predictor of knowledge gain was effort expended in the course. Students also had significant knowledge retention after the course. Both of these results are limited to the sample of students who chose to complete our knowledge tests. Student completion of the course was hard to predict, with few factors contributing predictive power; the main predictor of completion was intent to complete. Students who chose a concepts-only track with hand exercises achieved the same level of knowledge of recommender systems concepts as those who chose a programming track and its added assignments, though the programming students gained additional programming knowledge. Based on the limited data we were able to gather, face-to-face students performed as well as the online-only students or better; they preferred this format to traditional lecture for reasons ranging from pure convenience to the desire to watch videos at a different pace (slower for English language learners; faster for some native English speakers). This article also includes our qualitative observations, lessons learned, and future directions.
Combined Label-Free Quantitative Proteomics and microRNA Expression Analysis of Breast Cancer Unravel Molecular Differences with Clinical Implications
Authors: Gámez-Pozo Angelo , Berges-Soria Julia , Arevalillo Jorge M. , Nanni Paolo , López-Vacas Rocío , Navarro Hilario , Grossmann Jonas , Castaneda Carlos A. , Main Paloma , Díaz-Almirón Mariana , Espinosa Enrique , Ciruelos Eva , Fresno Vara Juan Ángel 
Published: April 2015

AbstractBetter knowledge of the biology of breast cancer has allowed the use of new targeted therapies, leading to improved outcome. High-throughput technologies allow deepening into the molecular architecture of breast cancer, integrating different levels of information, which is important if it helps in making clinical decisions. microRNA (miRNA) and protein expression profiles were obtained from 71 estrogen receptor–positive (ER+) and 25 triple-negative breast cancer (TNBC) samples. RNA and proteins obtained from formalin-fixed, paraffin-embedded tumors were analyzed by RT-qPCR and LC/MS-MS, respectively. We applied probabilistic graphical models representing complex biologic systems as networks, confirming that ER+ and TNBC subtypes are distinct biologic entities. The integration of miRNA and protein expression data unravels molecular processes that can be related to differences in the genesis and clinical evolution of these types of breast cancer. Our results confirm that TNBC has a unique metabolic profile that may be exploited for therapeutic intervention. Cancer Res; 75(11); 2243–53. ©2015 AACR.
Grapefruit-Derived Nanovectors Use an Activated Leukocyte Trafficking Pathway to Deliver Therapeutic Agents to Inflammatory Tumor Sites
Authors: Wang Qilong , Ren Yi , Mu Jingyao , Egilmez Nejat K. , Zhuang Xiaoyin , Deng Zhongbin , Zhang Lifeng , Yan Jun , Miller Donald , Zhang Huang-Ge 
Published: April 2015

Abstract
Inflammation is a hallmark of cancer. Activated immune cells are intrinsically capable of homing to inflammatory sites. Using three inflammatory-driven disease mouse models, we show that grapefruit-derived nanovectors (GNV) coated with inflammatory-related receptor enriched membranes of activated leukocytes (IGNVs) are enhanced for homing to inflammatory tumor tissues. Blocking LFA-1 or CXCR1 and CXCR2 on the IGNVs significantly inhibits IGNV homing to the inflammatory tissue. The therapeutic potential of IGNVs was further demonstrated by enhancing the chemotherapeutic effect as shown by inhibition of tumor growth in two tumor models and inhibiting the inflammatory effects of dextran sulfate sodium-induced mouse colitis. The fact that IGNVs are capable of homing to inflammatory tissue and that chemokines are overexpressed in diseased human tissue provides the rationale for using IGNVs to more directly deliver therapeutic agents to inflammatory tumor sites and the rationale for the use of IGNVs as treatment for certain cancers in personalized medicine. Cancer Res; 75(12); 2520–9. ©2015 AACR.
Daurinol Enhances the Efficacy of Radiotherapy in Lung Cancer via Suppression of Aurora Kinase A/B Expression
Authors: Woo Jong Kyu , Kang Ju-Hee , Shin DongYun , Park Seong-Hyeok , Kang Kyungsu , Nho Chu Won , Seong Je Kyung , Lee Sang-Jin , Oh Seung Hyun 
Published: April 2015

Abstract
The aurora kinases constitute one family of serine/threonine kinases whose activity is essential for mitotic progression. The aurora kinases are frequently upregulated in human cancers and are associated with sensitivity to chemotherapy in certain ones. In the present study, we investigated whether aurora kinases could be a target to overcome radioresistance or enhance the radiosensitivity of lung cancer. For that purpose, we determined the therapeutic potential of daurinol, an investigational topoisomerase inhibitor, alone and in combination with radiation, by observing its effect on aurora kinases. Daurinol decreased cell viability and proliferation in human colon and lung cancer cells. Gene expression in daurinol-treated human colon cancer cells was evaluated using RNA microarray. The mRNA expression of 18 genes involved in the mitotic spindle check point, including aurora kinase A (AURKA) and aurora kinase B (AURKB), was decreased in daurinol-treated human colon cancer cells as compared with vehicle-treated cells. As expected, radiation increased expression levels of AURKA and AURKB. This increase was effectively attenuated by siRNAs against AURKA and AURKB, which suppressed cell growth and increased apoptosis under radiation. Furthermore, the expression of AURKA and AURKB was suppressed by daurinol in the presence or absence of radiation in colon and lung cancer cells. Daurinol alone or in combination with radiation decreased lung cancer growth in xenograft mouse models. Our data clearly confirm the antitumor and radiosensitizing activity of daurinol in human lung cancer cells through the inhibition of AURKA and AURKB. Mol Cancer Ther; 14(7); 1693–704. ©2015 AACR.
INPP4B Is a PtdIns(3,4,5)P3 Phosphatase That Can Act as a Tumor Suppressor
Authors: Kofuji Satoshi , Kimura Hirotaka , Nakanishi Hiroki , Nanjo Hiroshi , Takasuga Shunsuke , Liu Hui , Eguchi Satoshi , Nakamura Ryotaro , Itoh Reietsu , Ueno Noriko , Asanuma Ken , Huang Mingguo , Koizumi Atsushi , Habuchi Tomonori , Yamazaki Masakazu , Suzuki Akira , Sasaki Junko , Sasaki Takehiko 
Published: April 2015

Abstract
Inositol polyphosphate 4-phosphatase B (INPP4B) has been identified as a tumor suppressor mutated in human breast, ovary, and prostate cancers. The molecular mechanism underlying INPP4B's tumor-suppressive role is currently unknown. Here, we demonstrate that INPP4B restrains tumor development by dephosphorylating the PtdIns(3,4,5)P3 that accumulates in situations of PTEN deficiency. In vitro, INPP4B directly dephosphorylates PtdIns(3,4,5)P3. In vivo, neither inactivation of Inpp4b (Inpp4bΔ/Δ) nor heterozygous deletion of Pten (Pten+/−) in mice causes thyroid abnormalities, but a combination of these mutations induces malignant thyroid cancers with lung metastases. At the molecular level, simultaneous deletion of Inpp4b and Pten synergistically increases PtdIns(3,4,5)P3 levels and activates AKT downstream signaling proteins in thyroid cells. We propose that the PtdIns(3,4,5)P3 phosphatase activity of INPP4B can function as a “back-up” mechanism when PTEN is deficient, making INPP4B a potential novel therapeutic target for PTEN-deficient or PIK3CA-activated cancers.
Significance: Although INPP4B expression is reduced in several types of human cancers, our work on Inpp4B-deficient mice provides the first evidence that INPP4B is a bona fide tumor suppressor whose function is particularly important in situations of PTEN deficiency. Our biochemical data demonstrate that INPP4B directly dephosphorylates PtdIns(3,4,5)P3. Cancer Discov; 5(7); 730–9. ©2015 AACR.
See related commentary by Vo and Fruman, p. 697.
See related article by Chew et al., p. 740.
This article is highlighted in the In This Issue feature, p. 681
Genetic Analysis of Leukocyte Type-I Interferon Production and Risk of Coronary Artery Disease
Authors: Nelson Christopher P. , Schunkert Heribert , Samani Nilesh J. , Erridge Clett 
Published: April 2015

Objective—
Patients with systemic lupus erythematosus are genetically predisposed to enhanced production of the type-I interferon IFN-α and are also at elevated risk of developing atherosclerosis compared with healthy subjects. We aimed to test whether genetic predisposition to increased type-I IFN production affects risk of coronary artery disease.

Approach and Results—

Using a list of 11 single nucleotide polymorphisms from the results of genome-wide association studies for systemic lupus erythematosus, which we hypothesised would be enriched in variants that regulate type-I IFN production, we identified a genetic risk score based on 3 single nucleotide polymorphisms (rs10516487, rs3131379 and rs7574865), which correlated significantly with production of IFN-α by human peripheral leukocytes stimulated with CpG-oligonucleotide (n=60,
P
=1.50×10
−5
). These single nucleotide polymorphisms explained 27.8% of variation in the CpG-oligonucleotide-induced IFN-α response and were also associated with Toll-like receptor-7/8– and Toll-like receptor-9–dependent IFN-α and IFN-β responses, but were not associated with inflammatory cytokine production in response to Toll-like receptor-4 stimulation or risk of coronary artery disease in 22 233 cases and 64 762 controls (odds ratio 1.00, 95% CI 0.98–1.02) using Mendelian randomization–based analyses. Coronary artery disease risk was also not associated with the full panel of 11 systemic lupus erythematosus single nucleotide polymorphisms or loci responsible for the monogenic type-I interferonopathies Aicardi-Goutières syndrome and Spondyloenchondrodysplasia with immune dysregulation.

Conclusions—
The results argue against the potential utility of drugs targeting type-I IFN production for coronary artery disease. The use of genetic variants that modify leukocyte signaling pathways, rather than circulating biomarkers, as instruments in Mendelian randomization analyses may be useful for studies investigating causality of other candidate pathways of atherogenesis.
Skin Autofluorescence as a Measure of Advanced Glycation End Products Deposition Predicts 5-Year Amputation in Patients With Peripheral Artery Disease
Authors: de Vos Lisanne C. , Boersema Jeltje , Mulder Douwe J. , Smit Andries J. , Zeebregts Clark J. , Lefrandt Joop D. 
Published: April 2015

Objective—
Patients with peripheral artery disease are at risk for critical limb ischemia and amputation. Accumulation of advanced glycation end products is increased and predictive for coronary and cerebrovascular events in several high cardiovascular risk groups. We hypothesized that accumulation of tissue advanced glycation end products, measured by skin autofluorescence (SAF), predicts amputation in patients with peripheral artery disease.

Approach and Results—

Between October 2007 and June 2008, 252 patients with peripheral artery disease were included at the outpatient clinic. During a 5-year follow-up, 22 (9%) had an amputation because of critical limb ischemia. Competing risks regression analysis showed a subproportional hazard ratio of 3.05 (95% confidence interval [CI], 1.87–4.96);
P
<0.0001 for amputation per unit incease of SAF. After correction for diabetes mellitus and Fontaine stage, subproportional hazard ratio was 2.72 (95% CI, 1.38–5.39);
P
=0.004. In patients with Fontaine stage I and II only (n=215), SAF was the only predictor for amputation, subproportional hazard ratio 4.05 (95% CI, 2.09–7.83);
P
<0.0001. Fontaine stage multiplied by SAF resulted in a significant increase of the area under the curve for prediction of amputation when compared with Fontaine stage only: area under the curve increased from 0.74 (95% CI, 0.63–0.86) to 0.83 (95% CI, 0.74–0.92);
P
=0.003.

Conclusions—
Skin autofluorescence, as a measure of tissue advanced glycation end products deposition, predicts amputation in patients with peripheral artery disease during a 5-year follow-up, independent from the presence of diabetes mellitus and Fontaine stage. Even at lower Fontaine stage (I or II), SAF is a strong predictor of amputation. The multiplication of Fontaine stage by SAF results in a good prediction model of amputation.