bluuebunny/crossref_metadata_2025_split huggingface dataset:
Agreement among measurements and estimations of glomerular filtration in children with cancer
Authors: Bernhardt M. Brooke , Moffett Brady S. , Johnson Michael , Tam Vincent H. , Thompson Patrick , Garey Kevin W. 
Published: September 2014

BackgroundGlomerular filtration is an important route of elimination for many types of chemotherapy. Accurate estimation of glomerular filtration at the bedside is essential in the management of children with cancer. Bedside formulae for the estimation of glomerular filtration have not been validated in children with cancer. We investigated the accuracy of three formulae (the original Schwartz, Counahan‐Barratt, and revised Schwartz equations) against measurement of the glomerular filtration rate (GFR) in a cohort of children with cancer.ProcedureThis was a retrospective review of existing data from a single institution. The electronic medical record was queried for subjects meeting inclusion criteria during a 3.5 year time frame. Bland‐Altman analyses were used to assess agreement among current formulae and estimating the GFR compared to the measured, or index GFR. Logistic regression was performed to identify potential variables with an effect on the estimation of GFR.ResultsNone of the three estimation formulae provided a reliable estimate of the index GFR. The mean difference was lowest between the revised Schwartz and the index GFR compared to the other two formulae and the index GFR. For the original Schwartz equation, age and prior receipt of chemotherapy were significant predictors of under‐ and overestimation. For the revised Schwartz equation, one age group (6–12 years) and a diagnosis of neuroblastoma actively receiving chemotherapy were positive risk factors for overestimation of the GFR.ConclusionCurrently available estimation formulae for GFR may not be appropriate for children with cancer. Pediatr Blood Cancer 2015;62:80–84. © 2014 Wiley Periodicals, Inc.
Endothelial nitric oxide synthase gene intron 4 VNTR polymorphism in sickle cell disease: Relation to vasculopathy and disease severity
Authors: Tantawy Azza Abdel Gawad , Adly Amira Abdel Moneam , Ismail Eman Abdel Rahman , Aly Shereen Hussiny 
Published: September 2014

BackgroundImpaired NO bioavailability represents the central feature of endothelial dysfunction, and is a common denominator in the pathogenesis of vasculopathy in sickle cell disease (SCD). Evidence indicates the contribution of 4a allele of endothelial NO synthase (eNOS) gene to cardiac and renal diseases. We studied the 27‐base pair tandem repeat polymorphism in intron 4 of eNOS gene in 51 patients with SCD compared with 55 healthy controls and evaluated its role in disease severity and hemolysis‐associated complications.ProcedureTransfusion history, vaso‐occlusive crisis, thrombotic events, urinary albumin excretion, and echocardiography were assessed. Analysis of eNOS intron 4 gene polymorphism was performed by polymerase chain reaction.ResultsThe distribution of eNOS alleles and genotypes was similar between patients with SCD and controls. Compared with bb genotype, the frequency of eNOS4a allele (aa and ab genotypes) was significantly higher in patients with elevated tricuspid regurgitant velocity (TRV) (P = 0.009), nephropathy (P = 0.006), or history of cerebral stroke (P = 0.029). Logistic regression analysis revealed that eNOS4a allele was an independent risk factor for elevated TRV (P < 0.001). Patients with SCD and eNOS4a allele had higher lactate dehydrogenase, serum ferritin, D‐Dimer, and von Willebrand factor antigen (P < 0.05).ConclusionsWe suggest that eNOS intron 4 gene polymorphism is related to endothelial dysfunction and vasculopathy in SCD and could provide utility for prediction of increased susceptibility to vascular complications. Pediatr Blood Cancer 2015;62:389–394. © 2014 Wiley Periodicals, Inc.
Allogeneic hematopoietic stem cell transplantation in pediatric myelodysplastic syndromes: A multicenter experience from Argentina
Authors: Basquiera Ana L. , Pizzi Silvia , Correas Agustín González , Longo Pablo G. , Goldman Wanda C. , Prates María V. , Formisano Sandra , Kusminisky Gustavo , Feldman Leonardo , Berretta Adriana R. , García Juan J. , Staciuk Raquel 
Published: September 2014

BackgroundAllogeneic hematopoietic stem cell transplantation (AHSCT) represents the only curative treatment for the majority of pediatric patients with Myelodysplastic Syndrome (MDS). We aimed to evaluate overall survival (OS), disease‐free survival (DFS), non‐relapse mortality (NRM) and relapse incidence in children who underwent AHSCT for MDS in six institutions from Argentina.ProcedureA retrospective analysis of 54 AHSCT was carried out in 52 patients (mean age: 9 years; range: 2–19; 35 males).ResultsMDS subtypes were refractory cytopenia of childhood (RCC) (n: 26, 50%), refractory anemia with excess blasts (RAEB) (n: 9, 18%), RAEB in transformation (RAEB‐T) (n: 8, 15%) and juvenile myelomonocytic leukemia (JMML) (n: 9, 17%). At time of transplant, seven (13%) patients transformed to acute myeloid leukemia (AML) and two patients with RCC to RAEB. Donors were related in 32 cases (59%) and the stem cells source was: bone marrow (63%), peripheral blood (26%), and umbilical cord blood (11%). Five‐year DFS and OS were 50% and 55% respectively; and for patients with JMML, 57% and 67% respectively. Cumulative incidence of NRM and relapse were 27% and 21% respectively. In the multivariate analysis, umbilical cord blood (HR 4.07; P = 0.025) and age ≥ 9 years at transplantation (HR 3.28; P = 0.017) were associated with lower OS; age and graft‐versus‐host disease (GVHD) had a higher NRM.ConclusionsIn our series, more than half of the patients achieved long term OS with AHSCT. Less toxic conditioning regimens or more intensive GVHD prophylaxis could lead to better results in some children. Pediatr Blood Cancer 2015;62:153–157. © 2014 Wiley Periodicals, Inc.
Hematopoietic stem cell transplantation for patients with acute lymphoblastic leukemia and Down syndrome
Authors: Goto Hiroaki , Kaneko Takashi , Shioda Yoko , Kajiwara Michiko , Sakashita Kazuo , Kitoh Toshiyuki , Hayakawa Akira , Miki Mizuka , Kato Keisuke , Ogawa Atsushi , Hashii Yoshiko , Inukai Takeshi , Kato Chiaki , Sakamaki Hisashi , Yabe Hiromasa , Suzuki Ritsuro , Kato Koji 
Published: September 2014

BackgroundHematopoietic stem cell transplantation (HSCT) is one curable option for high‐risk acute lymphoblastic leukemia (ALL); however, transplant‐related toxicities might be severe in patients with Down syndrome and ALL (DS‐ALL).ProcedureHSCTs performed in patients with DS‐ALL were identified in the Japan Society for Hematopoietic Cell Transplantation registry.ResultsIn the registry data, 11 patients with DS‐ALL were identified. The median age at HSCT was 9 years (range: 6–22 years). Six patients underwent HSCT at non‐remission status. Allogeneic grafts were utilized in all patients, including eight patients who received HSCT from unrelated donors. Reduced intensity conditioning regimens were used in three patients. All patients achieved neutrophil engraftment by a median of day 18 (range: day 11–61). Ten patients experienced grade 3 or more infectious episodes. Six patients experienced complications of the respiratory system. The incidences of II–IV or III–IV acute GVHD were nine (81.8%) or seven patients (63.6%), respectively. Chronic GVHD was observed in five (55.6%) out of nine evaluable patients. Seven patients died at a median of 6 months (range: 0–24 months) after HSCT. Two‐year relapse‐free and overall survival were 33.3% (95% CI: 2.5–64.1%) or 37.5% (95% CI: 5.9–69.1%), respectively. The causes of death were relapse (n = 2), infection (n = 2), bleeding (n = 1), thrombotic microangiopathy (n = 1), and chronic GVHD (n = 1).ConclusionsTherapy‐related mortality accounted for five out of seven deceased patients in this case series. Attempts to reduce toxicities should be considered in HSCT for patients with DS‐ALL. Pediatr Blood Cancer 2015;62:148–152. © 2014 Wiley Periodicals, Inc.
Application of information theory to a three‐body coarse‐grained representation of proteins in the PDB: Insights into the structural and evolutionary roles of residues in protein structure
Authors: Thompson Jared J. , Tabatabaei Ghomi Hamed , Lill Markus A. 
Published: October 2014

ABSTRACTKnowledge‐based methods for analyzing protein structures, such as statistical potentials, primarily consider the distances between pairs of bodies (atoms or groups of atoms). Considerations of several bodies simultaneously are generally used to characterize bonded structural elements or those in close contact with each other, but historically do not consider atoms that are not in direct contact with each other. In this report, we introduce an information‐theoretic method for detecting and quantifying distance‐dependent through‐space multibody relationships between the sidechains of three residues. The technique introduced is capable of producing convergent and consistent results when applied to a sufficiently large database of randomly chosen, experimentally solved protein structures. The results of our study can be shown to reproduce established physico‐chemical properties of residues as well as more recently discovered properties and interactions. These results offer insight into the numerous roles that residues play in protein structure, as well as relationships between residue function, protein structure, and evolution. The techniques and insights presented in this work should be useful in the future development of novel knowledge‐based tools for the evaluation of protein structure. Proteins 2014; 82:3450–3465. © 2014 Wiley Periodicals, Inc.
Clumped isotope measurements of small carbonate samples using a high‐efficiency dual‐reservoir technique
Authors: Petersen Sierra V. , Schrag Daniel P. 
Published: October 2014

RATIONALEThe measurement of multiply substituted isotopologues of CO2 derived from carbonate has allowed the reconstruction of paleotemperatures from a single phase (CaCO3), circumventing uncertainty inherent in other isotopic paleothermometers. Traditional analytical techniques require relatively large amounts of carbonate (3–8 mg per replicate), which limits the applicability of the clumped isotope proxy to certain geological materials such as marine microfossils, commonly used for paleoclimate reconstructions.METHODSClumped isotope ratio measurements of small samples were made on a new, high‐efficiency, dual‐reservoir sample‐preparation inlet system attached to a Thermo‐Finnigan MAT 253 mass spectrometer. Sample gas produced on the inlet is introduced from a 10 mL reservoir directly into the source via a capillary. Reference gas fills an identical 10 mL reservoir installed between the reference bellows and the capillary. The gas pressures in the two reservoirs are initially balanced, and are allowed to decrease together over the run.RESULTSCarbonate samples from 1 mg to 2.6 mg produced Δ47 values equivalent to those from the traditional two‐bellows method with identical single‐sample precision (1 SE = 0.005–0.015‰) and external standard error (SE = 0.006–0.015‰, n = 4–6). The size of sample needed to achieve good precision is controlled by the sensitivity of the mass spectrometer and the size of the fixed reservoirs and adjacent U‐trap installed on our inlet.CONCLUSIONSThe high‐precision clumped isotope measurements of small aliquots of carbonate obtained in this method allows for the application of this proxy to a wider range of geological sample materials, such as marine microfossils, that until now have been nearly impossible to analyze given sample size limitation. Copyright © 2014 John Wiley & Sons, Ltd.
Game‐theoretic modeling and analysis of relay selection in cooperative wireless networks
Authors: Baidas Mohammed W. , Bahbahani Mohammed S. 
Published: October 2014

ABSTRACTIn this paper, distributed single relay selection in cooperative wireless networks is modeled as a Chinese restaurant game (CRG). Specifically, the CRG is used to model strategic relay selection decisions of source nodes, taking into account negative network externality due to the potential sharing of relay nodes among source nodes. Two cases are studied as follows: (i) perfect relay transmit power (RTP) knowledge and (ii) imperfect RTP knowledge. Under the first case, a distributed relay selection algorithm is proposed and shown to converge to a Nash equilibrium grouping. Under the second case, a reinforcement learning algorithm is proposed and combined with the distributed relay selection algorithm to allow network nodes to select rate‐maximizing relays. Simulation results verify the efficiency of the proposed distributed relay selection algorithm when compared with other relay selection schemes and demonstrate that it yields a network sum‐rate that is comparable with that of centralized relay selection. Copyright © 2014 John Wiley & Sons, Ltd.
The beach, the bikini, and the best buy: Replies to Dunn and Weidman, and to Schmitt, Brakus, and Zarantonello
Authors: Gilovich Thomas , Kumar Amit , Jampol Lily 
Published: September 2014

AbstractWe reply to commentaries on Gilovich, Kumar & Jampol (2015‐‐in this issue) by Dunn & Weidman (2015‐in this issue) and Schmitt, Brakus and Zarantonello (2015‐in this issue). We argue that the distinction between material and experiential purchases is meaningful and important, that experiences can be bought, and that our comparisons of the two have not been confounded by factors such as significance, importance, purchase price, or subjective appeal. We further discuss the potential limitations of populations from which we have sampled, and differences in consumer satisfaction across different time frames. We conclude by embracing the fact that our program of research has generated many open questions and by welcoming further empirical attempts to understand the psychological processes and hedonic consequences that attend these two types of purchases.
Combination of novel HER2‐targeting antibody 1E11 with trastuzumab shows synergistic antitumor activity in HER2‐positive gastric cancer
Authors: Ko Bong-Kook , Lee Sook-Yeon , Lee Young-Ha , Hwang In-Sik , Persson Helena , Rockberg Johan , Borrebaeck Carl , Park Dongeun , Kim Kyu-Tae , Uhlen Mathias , Lee Jong-Seo 
Published: September 2014

AbstractThe synergistic interaction of two antibodies targeting the same protein could be developed as an effective anti‐cancer therapy. Human epidermal growth factor receptor 2 (HER2) is overexpressed in 20–25% of breast and gastric cancer patients, and HER2‐targeted antibody therapy using trastuzumab is effective in many of these patients. Nonetheless, improving therapeutic efficacy and patient survival is important, particularly in patients with HER2‐positive gastric cancer. Here, we describe the development of 1E11, a HER2‐targeted humanized monoclonal antibody showing increased efficacy in a highly synergistic manner in combination with trastuzumab in the HER2‐overexpressing gastric cancer cell lines NCI‐N87 and OE‐19. The two antibodies bind to sub‐domain IV of the receptor, but have non‐overlapping epitopes, allowing them to simultaneously bind HER2. Treatment with 1E11 alone induced apoptosis in HER2‐positive cancer cells, and this effect was enhanced by combination treatment with trastuzumab. Combination treatment with 1E11 and trastuzumab reduced the levels of total HER2 protein and those of aberrant HER2 signaling molecules including phosphorylated HER3 and EGFR. The synergistic antitumor activity of 1E11 in combination with trastuzumab indicates that it could be a novel potent therapeutic antibody for the treatment of HER2‐overexpressing gastric cancers.
Steuerungspotenziale des ÖGD – Gesundheitsberichterstattung
Authors: Borrmann Brigitte , Rosenkötter Nicole 
Published: September 2014

Einleitung
Routinemäßige Gesundheitsberichterstattung (GBE) eröffnet dem öffentlichen Gesundheitsdienst Steuerungspotentiale auf kommunaler Ebene. GBE dient der Bedarfsermittlung im Bereich der Bevölkerungsgesundheit und der Überprüfung von Effekten komplexer Interventionen. Als Steuerungsinstrument ist sie insbesondere dann wirksam, wenn sie mit sektorübergreifender Planung und kommunalen Gesundheitskonferenzen kombiniert wird.
Shiny-phyloseq: Web application for interactive microbiome analysis with provenance tracking
Authors: McMurdie Paul J. , Holmes Susan 
Published: September 2014

Abstract
Summary: We have created a Shiny-based Web application, called Shiny-phyloseq , for dynamic interaction with microbiome data that runs on any modern Web browser and requires no programming, increasing the accessibility and decreasing the entrance requirement to using phyloseq and related R tools. Along with a data- and context-aware dynamic interface for exploring the effects of parameter and method choices, Shiny-phyloseq also records the complete user input and subsequent graphical results of a user’s session, allowing the user to archive, share and reproduce the sequence of steps that created their result—without writing any new code themselves.
Availability and implementation : Shiny-phyloseq is implemented entirely in the R language. It can be hosted/launched by any system with R installed, including Windows, Mac OS and most Linux distributions. Information technology administrators can also host Shiny-phyloseq from a remote server, in which case users need only have a Web browser installed. Shiny-phyloseq is provided free of charge under a GPL-3 open-source license through GitHub at http://joey711.github.io/shiny-phyloseq/ .
Contact : mcmurdie@alumni.stanford.edu .
switchBox: an R package for k–Top Scoring Pairs classifier development
Authors: Afsari Bahman , Fertig Elana J. , Geman Donald , Marchionni Luigi 
Published: September 2014

Abstract
Summary : k–Top Scoring Pairs ( kTSP ) is a classification method for prediction from high-throughput data based on a set of the paired measurements. Each of the two possible orderings of a pair of measurements (e.g. a reversal in the expression of two genes) is associated with one of two classes. The kTSP prediction rule is the aggregation of voting among such individual two-feature decision rules based on order switching. kTSP , like its predecessor, Top Scoring Pair ( TSP ), is a parameter-free classifier relying only on ranking of a small subset of features, rendering it robust to noise and potentially easy to interpret in biological terms. In contrast to TSP , kTSP has comparable accuracy to standard genomics classification techniques, including Support Vector Machines and Prediction Analysis for Microarrays. Here, we describe ‘switchBox’, an R package for kTSP -based prediction.
Availability : The ‘switchBox’ package is freely available from Bioconductor: http://www.bioconductor.org .
Contact : bahman@jhu.edu
Supplementary information : Supplementary data are available at Bioinformatics online.
Near- to mid-infrared imaging and spectroscopy of two buried AGNs of the nearby merging galaxy NGC 6240 with Subaru/IRCS+AO and GTC/CanariCam
Authors: Mori Tamami I. , Imanishi Masatoshi , Alonso-Herrero Almudena , Packham Chris , Ramos Almeida Cristina , Nikutta Robert , González-Martín Omaira , Perlman Eric , Saito Yuriko , Levenson Nancy A. 
Published: October 2014

Abstract
We report near-infrared K ′, L′, and M ′ band imaging observations of the nearby merging galaxy NGC 6240 with the Infrared Camera and Spectrograph on the Subaru telescope. The observations were performed with the assistance of the Subaru Adaptive Optics System, and the achieved spatial resolutions were around 0${^{\prime\prime}_{.}}$10–0${^{\prime\prime}_{.}}$20. We also obtained new mid-infrared imaging in the Si-2 filter band (8.7 μm) and N-band (7.5–13 μm) spectroscopy of this galaxy with the CanariCam on the Gran Telescopio Canarias with a spatial resolution of 0${^{\prime\prime}_{.}}$4–0${^{\prime\prime}_{.}}$5. In the K ′ band image the two nuclei of the galaxy each show a double peak suggesting the complex geometry of the source, while the L′, M ′, and Si-2 band images show single compact structures in each of the two nuclei. Assuming that the center core observed at wavelengths longer than 3.8 μm is associated with dust heated by the buried AGN, we re-evaluated the spectral energy distributions (SEDs) of the southern nucleus from 2 to 30 μm with additional literature values, and performed the SED+spectroscopy fit using the clumpy torus models of Nenkova et al. (2008a, ApJ, 685, 145; 2008b, ApJ, 685, 160) and a Bayesian fitting approach. The model fit suggests that the high covering factor torus emission in the southern nucleus is also obscured by foreground dust in the host galaxy. The estimated AGN bolometric luminosity of the southern nucleus, Lbol(AGN) ∼ 1 × 1045 erg s−1, accounts for approximately 40% of the whole luminosity of the system.
NMR analysis of a series of 1,2-bis(1-R-5-oxo-2,3-dihydro-1H-pyrrol-4-ylidene)ethanes and X-ray crystal structure analysis of theR= mesityl compound
Authors: Liu Qi , Song Xiu-Qing , Yan Hong 
Published: September 2014

Four tetramethyl 4,4′-(ethane-1,2-diylidene)bis[1-R-5-oxo-4,5-dihydro-1H-pyrrole-2,3-dicarboxylate] compounds, denoted class (1), are a series of conjugated buta-1,3-dienes substituted with a heterocyclic group. The compounds can be used as dyes and pigments due to their long-range conjugated systems. Four structures were studied using1H NMR,13C NMR and mass spectroscopy,viz.withR= 2,4,6-trimethylphenyl, (1a),R = cyclohexyl, (1b),R=tert-butyl, (1c), andR= isopropyl, (1d). A detailed discussion is presented regarding the characteristics of the three-dimensional structures based on NMR analysis and the X-ray crystal structure of (1a), namely tetramethyl 4,4′-(ethane-1,2-diylidene)bis[5-oxo-1-(2,4,6-trimethylphenyl)-4,5-dihydro-1H-pyrrole-2,3-dicarboxylate], C36H36N2O10. The conjugation plane and stability were also studiedviaquantum chemical calculations.
Police interpretation examinations in Taiwan during the period of Japanese rule
Authors: Shu Yang Cheng 
Published: October 2014

Purpose
– During the period of Japanese rule after 1895, the language barrier resulted in social and political problems. Thus, the Japanese implemented an interpretation examination system, with an aim of encouraging rank-and-file members of the police force to learn interpretation. The system included tiers and stipends, and offered incentives such as career advancement. This policy, which started at the early period of Japanese rule, lasted up to 40 years. The purpose of this paper is to conduct an analysis of the contents of examinations and statements from interpreters in the system of multiple role interpreters during the period of Japanese rule in Taiwan.

Design/methodology/approach
– Through analysis of several hundred examination questions on Japanese-Taiwanese interpretation, and dozens of pieces of literature examining the interpreter reactions toward this system and the examination questions, this study will explore the examination methodology, content of examination questions, and the difficulty of the examinations.

Findings
– The tangible aspects of colonial rule can be seen through the contents of the examinations, and the roles and functions granted by the rulers to the interpreters can be described.

Originality/value
– The establishment of a database for police interpretation examination questions and analysis of said questions in database.