bluuebunny/crossref_metadata_2025_split huggingface dataset:
Genetic Landscapes of Relapsed and Refractory Diffuse Large B-Cell Lymphomas
Authors: Morin Ryan D. , Assouline Sarit , Alcaide Miguel , Mohajeri Arezoo , Johnston Rebecca L. , Chong Lauren , Grewal Jasleen , Yu Stephen , Fornika Daniel , Bushell Kevin , Nielsen Torsten Holm , Petrogiannis-Haliotis Tina , Crump Michael , Tosikyan Axel , Grande Bruno M. , MacDonald David , Rousseau Caroline , Bayat Maryam , Sesques Pierre , Froment Remi , Albuquerque Marco , Monczak Yury , Oros Kathleen Klein , Greenwood Celia , Riazalhosseini Yasser , Arseneault Madeleine , Camlioglu Errol , Constantin André , Pan-Hammarstrom Qiang , Peng Roujun , Mann Koren K. , Johnson Nathalie A. 
Published: December 2015

Abstract
Purpose: Relapsed or refractory diffuse large B-cell lymphoma (rrDLBCL) is fatal in 90% of patients, and yet little is known about its biology.
Experimental Design: Using exome sequencing, we characterized the mutation profiles of 38 rrDLBCL biopsies obtained at the time of progression after immunochemotherapy. To identify genes that may be associated with relapse, we compared the mutation frequency in samples obtained at relapse to an unrelated cohort of 138 diagnostic DLBCLs and separately amplified specific mutations in their matched diagnostic samples to identify clonal expansions.
Results: On the basis of a higher frequency at relapse and evidence for clonal selection, TP53, FOXO1, MLL3 (KMT2C), CCND3, NFKBIZ, and STAT6 emerged as top candidate genes implicated in therapeutic resistance. We observed individual examples of clonal expansions affecting genes whose mutations had not been previously associated with DLBCL including two regulators of NF-κB: NFKBIE and NFKBIZ. We detected mutations that may be affect sensitivity to novel therapeutics, such as MYD88 and CD79B mutations, in 31% and 23% of patients with activated B-cell–type of rrDLBCL, respectively. We also identified recurrent STAT6 mutations affecting D419 in 36% of patients with the germinal center B (GCB) cell rrDLBCL. These were associated with activated JAK/STAT signaling, increased phospho-STAT6 protein expression and increased expression of STAT6 target genes.
Conclusions: This work improves our understanding of therapeutic resistance in rrDLBCL and has identified novel therapeutic opportunities especially for the high-risk patients with GCB-type rrDLBCL. Clin Cancer Res; 22(9); 2290–300. ©2015 AACR.
Phase II Drug-Metabolizing Polymorphisms and Smoking Predict Recurrence of Non–Muscle-Invasive Bladder Cancer: A Gene–Smoking Interaction
Authors: Lacombe Louis , Fradet Vincent , Lévesque Éric , Pouliot Frédéric , Larue Hélène , Bergeron Alain , Hovington Hélène , Caron André , Nguile-Makao Molière , Harvey Mario , Fradet Yves , Guillemette Chantal 
Published: December 2015

Abstract
Cigarette smoking is the most important known risk factor for urinary bladder cancer. Selected arylamines in cigarette smoke are recognized human bladder carcinogens and undergo biotransformation through several detoxification pathways, such as the glutathione S-transferases (GST), and uridine-diphospho-glucuronosyltransferases (UGT) pathways. GSTM1 deletion status and UGT1A1*28 rs8175347 genotypes were assessed in 189 non–muscle-invasive bladder cancers (NMIBC) patients with pTa (77.2%) and pT1 (22.8%) tumors and a mean follow-up of 5.6 years, to investigate whether two common functional polymorphisms in GSTM1 and UGT1A1 genes and smoking history are associated with recurrence-free survival of patients with NMIBC. Most patients were current (48.7%) or previous (35.4%) cigarette smokers and 15.9% never smoked. Tumor recurrence occurred in 65.1% of patients, at a median time of 12.9 months. Upon multivariate analysis, previous and current smokers approximately tripled their risk of recurrences [HR = 2.76; 95% confidence interval (CI), 1.03–7.40 and HR = 2.93; 95% CI, 1.08–7.94, respectively]. When adjusted for age, smoking status, stage, grade, gender, and presence of carcinoma in situ, carriers of GSTM1 (+/− and −/−) and UGT1A1*28/*28 alleles were significantly at risk of NMIBC recurrence (HR = 10.05; 95% CI, 1.35–75.1 and HR = 1.91; 95% CI, 1.01–3.62, respectively). Compared with nonsmokers with UGT1A1*1/*1 and *1/*28 genotypes, previous and current smokers homozygous for the UGT1A1*28 allele demonstrated a risk of recurrence of 4.95 (95% CI, 1.02–24.0) and 5.32 (95% CI, 2.07–13.7), respectively. This study establishes a connection between GSTM1, UGT1A1, and tobacco exposure as prognostic markers of NMIBC recurrence in bladder cancer patients. These findings warrant validation in larger cohorts. Cancer Prev Res; 9(2); 189–95. ©2015 AACR.
Tumor Heterogeneity and Lesion-Specific Response to Targeted Therapy in Colorectal Cancer
Authors: Russo Mariangela , Siravegna Giulia , Blaszkowsky Lawrence S. , Corti Giorgio , Crisafulli Giovanni , Ahronian Leanne G. , Mussolin Benedetta , Kwak Eunice L. , Buscarino Michela , Lazzari Luca , Valtorta Emanuele , Truini Mauro , Jessop Nicholas A. , Robinson Hayley E. , Hong Theodore S. , Mino-Kenudson Mari , Di Nicolantonio Federica , Thabet Ashraf , Sartore-Bianchi Andrea , Siena Salvatore , Iafrate A. John , Bardelli Alberto , Corcoran Ryan B. 
Published: December 2015

Abstract
How genomic heterogeneity associated with acquired resistance to targeted agents affects response to subsequent therapy is unknown. We studied EGFR blockade in colorectal cancer to assess whether tissue and liquid biopsies can be integrated with radiologic imaging to monitor the impact of individual oncogenic alterations on lesion-specific responses. Biopsy of a patient's progressing liver metastasis following prolonged response to cetuximab revealed a MEK1K57T mutation as a novel mechanism of acquired resistance. This lesion regressed upon treatment with panitumumab and the MEK inhibitor trametinib. In circulating tumor DNA (ctDNA), mutant MEK1 levels declined with treatment, but a previously unrecognized KRASQ61H mutation was also identified that increased despite therapy. This same KRAS mutation was later found in a separate nonresponding metastasis. In summary, parallel analyses of tumor biopsies and serial ctDNA monitoring show that lesion-specific radiographic responses to subsequent targeted therapies can be driven by distinct resistance mechanisms arising within separate tumor lesions in the same patient.
Significance: Molecular heterogeneity ensuing from acquired resistance drives lesion-specific responses to subsequent targeted therapies. Analysis of a single-lesion biopsy is inadequate to guide selection of subsequent targeted therapies. ctDNA profiles allow the detection of concomitant resistance mechanisms residing in separate metastases and assessment of the effect of therapies designed to overcome resistance. Cancer Discov; 6(2); 147–53. ©2015 AACR.
See related commentary by Hiley and Swanton, p. 122.
This article is highlighted in the In This Issue feature, p. 109
As Práticas de Leitura Literária e a Literatura Infantil no Acervo do Estágio de Formação do Educador em Serviço – EFES: Resultados e Análises Preliminares de um Projeto de Pesquisa e Extensão Universitária
Authors: Hatagima Gustavo , Rezende Neide Luzia de , Moraes Dislane Zerbinatti 
Published: December 2015

<p>O presente artigo se propõe a expor os resultados preliminares desta pesquisa de Iniciação Científica que procura obter elementos e fontes que contribuam para uma melhor compreensão das práticas de leitura literária e formação de leitores bem como da presença (ou ausência) da literatura infantil na escola pública brasileira entre as décadas de 1980 e 1990. Por meio da identificação, organização e análise do Acervo do Estágio de Formação do Educador em Serviço – EFES, procuramos reconstituir o que Chervel [2] e Julia [5] chamam de "história das disciplinas escolares", no que diz respeito ao ensino da língua portuguesa e literatura, bem como a própria história desse complexo e longo projeto de pesquisa e extensão universitária. Uma primeira abordagem e análise desse arquivo já nos permite compreender seu potencial para futuras pesquisas, bem como nos possibilitou resgatar as publicações da equipe EFES durante seu período de existência. Apresentaremos uma síntese da primeira triagem dessa documentação, que constituirá nosso corpus documental.</p>
Dia Sem Carne: Relato de um Projeto de Extensão
Authors: Carvalho Aline Martins de , Martins Joyce Godinho , Negrão Camila , Selem Soraya Sant'Ana de Castro , Andrade Samantha Caesar de , Vieira Viviane Laudelino , Fisberg Regina Mara , Marchioni Dirce Maria 
Published: December 2015

<p>O projeto de extensão Dia Sem Carne foi elaborado na Faculdade de Saúde Pública da USP, em 2012, com o objetivo de discutir com a comunidade acadêmica sobre os riscos causados à saúde e ao meio ambiente pelo consumo excessivo de carne. Durante o ano de 2012 o projeto foi chamado Segunda Sem Carne na FSP e a ação principal foi a parceria com o restaurante da Faculdade de Saúde Pública da Universidade de São Paulo-COSEAS, no qual houve a inclusão de um cardápio sem carne em uma segunda-feira de cada mês. Além disso, o projeto atingiu o ciberespaço e as mídias sociais, com uma página no Facebook e um blog. Em 2013, o projeto alcançou a comunidade externa à USP, com parceria firmada com a Alimentação Escolar do Município de São Paulo e com o Centro de Referência para prevenção e controle de doenças associadas à Nutrição – CRNutri para a realização de palestras e oficinas para a comunidade, além de continuar com ações digitais por meio do blog e mídia social.</p>
Divulgação Científica em Astronomia no Observatório Abrahão de Moraes
Authors: Teixeira Ramachrisna , Soja Ana Cecília , Coelho Luciene Da Silva , Santucci Rafael Miloni , Arizono Elisa Carolina 
Published: December 2015

<p>O Observatório Abrahão de Moraes, com sede no município de Valinhos-SP e acesso por Vinhedo-SP, é um laboratório de pesquisa científica pertencente ao Instituto de Astronomia, Geofísica e Ciências Atmosféricas da Universidade de São Paulo. Graças aos interesses e esforços de professores, alunos e funcionários, ele gradativamente abriu suas portas à divulgação científica, sendo hoje, reconhecidamente, um importante centro de difusão do conhecimento na região, atingindo também cidades mais distantes. Esta difusão se dá através de contatos diretos com o público nas visitações diurnas, bastante frequentes, nas noites de observações regulares, ambas com agendamento prévio e ainda nos eventos esporádicos como Portas abertas e Férias com mais estrelas, além de palestras e estágios. Além disso, tem também um contato indireto bastante intenso, através do uso de um de seus telescópios via internet e de frequentes inserções na mídia, principalmente regional. Desde 2008 são recebidos, em média, mais de 2000 visitantes por ano e pode ser muito mais ainda, desde que tenha infraestrutura material e humana adequadas. O aprimoramento das condições atuais está no horizonte da instituição, vindo de encontro à valorização, cada vez maior, que a USP e outros órgãos financiadores de pesquisa estão dando a essas atividades.</p>
Association of Patient-Reported Health Status With Long-Term Mortality After Transcatheter Aortic Valve Replacement
Authors: Arnold Suzanne V. , Spertus John A. , Vemulapalli Sreekanth , Dai Dadi , O’Brien Sean M. , Baron Suzanne J. , Kirtane Ajay J. , Mack Michael J. , Green Philip , Reynolds Matthew R. , Rumsfeld John S. , Cohen David J. 
Published: December 2015

Background—
Although transcatheter aortic valve replacement (TAVR) is an effective treatment for aortic stenosis, long-term mortality after TAVR remains high and challenging to predict. The Kansas City Cardiomyopathy Questionnaire (KCCQ) is a health status measure, assessed directly from patients, that integrates 2 clinically relevant factors (symptoms and functional status) that may predict TAVR outcomes.

Methods and Results—
Among 7769 patients from 286 sites in the Society of Thoracic Surgeons (STS)/American College of Cardiology (ACC) Transcatheter Valve Therapy (TVT) Registry, we examined the association between preprocedure (baseline) patient health status, as assessed by the KCCQ, and 1-year mortality after TAVR. The KCCQ Overall Summary Score was categorized as very poor: <25, poor: 25 to 49, fair: 50 to 74, or good: ≥75. Before TAVR, health status was rated as very poor in 28%, poor in 38%, fair in 24%, and good in 10%. Patients with worse health status were more likely to be women and had more comorbidities and higher STS mortality risk scores. Compared with those with good health status before TAVR and after adjusting for a broad range of baseline covariates, patients with very poor health status had a 2-fold increased hazard of death over the first year after TAVR (adjusted hazard ratio, 2.00; 95% confidence interval, 1.58–2.54), whereas those with poor and fair health status had intermediate outcomes (adjusted hazard ratio, 1.54; 95% confidence interval, 1.22–1.95 and adjusted hazard ratio, 1.20; 95% confidence interval, 0.94–1.55, respectively).

Conclusions—
In a national, contemporary practice cohort, worse preprocedure patient health status, as assessed by the KCCQ, was associated with greater long-term mortality after TAVR. These results support the measurement and integration of the KCCQ into mortality risk assessments for patients considering TAVR.
Effects of Optimism and Gratitude on Physical Activity, Biomarkers, and Readmissions After an Acute Coronary Syndrome
Authors: Huffman Jeff C. , Beale Eleanor E. , Celano Christopher M. , Beach Scott R. , Belcher Arianna M. , Moore Shannon V. , Suarez Laura , Motiwala Shweta R. , Gandhi Parul U. , Gaggin Hanna K. , Januzzi James L. 
Published: December 2015

Background—
Positive psychological constructs, such as optimism, are associated with beneficial health outcomes. However, no study has separately examined the effects of multiple positive psychological constructs on behavioral, biological, and clinical outcomes after an acute coronary syndrome (ACS). Accordingly, we aimed to investigate associations of baseline optimism and gratitude with subsequent physical activity, prognostic biomarkers, and cardiac rehospitalizations in post-ACS patients.

Methods and Results—

Participants were enrolled during admission for ACS and underwent assessments at baseline (2 weeks post-ACS) and follow-up (6 months later). Associations between baseline positive psychological constructs and subsequent physical activity/biomarkers were analyzed using multivariable linear regression. Associations between baseline positive constructs and 6-month rehospitalizations were assessed via multivariable Cox regression. Overall, 164 participants enrolled and completed the baseline 2-week assessments. Baseline optimism was significantly associated with greater physical activity at 6 months (n=153;
β
=102.5; 95% confidence interval, 13.6–191.5;
P
=0.024), controlling for baseline activity and sociodemographic, medical, and negative psychological covariates. Baseline optimism was also associated with lower rates of cardiac readmissions at 6 months (n=164), controlling for age, sex, and medical comorbidity (hazard ratio, 0.92; 95% confidence interval, [0.86–0.98];
P
=0.006). There were no significant relationships between optimism and biomarkers. Gratitude was minimally associated with post-ACS outcomes.

Conclusions—
Post-ACS optimism, but not gratitude, was prospectively and independently associated with superior physical activity and fewer cardiac readmissions. Whether interventions that target optimism can successfully increase optimism or improve cardiovascular outcomes in post-ACS patients is not yet known, but can be tested in future studies.

Clinical Trial Registration—

URL:
http://www.clinicaltrials.gov
. Unique identifier: NCT01709669.
Du dictionnaire chinois-latin de Basilio Brollo aux lexiques pour le marché: deux siècles d’édition du chinois en Italie et en France
Authors: Bussotti Michela 
Published: December 2015

By their very nature, multilingual dictionaries and lexicons are an emblem of cultural transfers. When printing widely different types of writing is necessary, they may also be precious witnesses of technical transfers and innovations in publishing and printing practice. Successfully publishing a major dictionary requires the conjunction of institutional or governmental will and adequate economic resources. This article provides an overview of the various versions of Basilio Brollo’s Dictionarium Sinico-Latinum, which served as a blueprint for several publishing projects, most of them abortive, in the eighteenth and nineteenth centuries. It introduces the various printing techniques used in these attempts, and discusses the mixed results of the editorial programs pursued in Europe, particularly in Italy and France. The Napoleonic period is significant not just because a Dictionnaire chinois, français et latin was published in Paris in 1813, but also because of the work carried out at the Collegio dei Cinese during the “French Decade” (1806–1815) in Naples. The article introduces several protagonists—both scholars concerned with publishing and teaching Chinese and publishers pursuing commercial interests—along the way. Par leur contenu même les dictionnaires et lexiques plurilingues sont emblématiques des transferts culturels. La nécessité d’imprimer des écritures très différentes en fait parfois de précieux témoins des transferts techniques et des innovations dans les pratiques d’édition et d’impression. Concernant les dictionnaires les plus importants, l’aboutissement d’une publication nécessite la concomitance d’une volonté institutionnelle ou étatique et de moyens économiques adéquats. Cet article donne un aperçu des différentes versions du Dictionarium Sinico-Latinum de Basilio Brollo, qui fut à la base de plusieurs projets d’édition, la plupart inaboutis, aux xviiie et xixe siècles. Il évoque les différentes techniques d’impression utilisées dans ces tentatives, ainsi que les résultats très inégaux des programmes éditoriaux menés en Europe, notamment en Italie et en France. La période napoléonienne est significative non seulement en raison de la parution à Paris en 1813 du Dictionnaire chinois, français et latin, mais aussi à cause des travaux entrepris au Collegio dei Cinesi pendant la “décennie française” à Naples (1806–1815). Plusieurs protagonistes — savants soucieux de l’édition et de l’enseignement du chinois, éditeurs mus par des motivations commerciales — sont évoqués en cours de route.
Limitations of One-Dimensional Mesoscale PBL Parameterizations in Reproducing Mountain-Wave Flows
Authors: Muñoz-Esparza Domingo , Sauer Jeremy A. , Linn Rodman R. , Kosović Branko 
Published: December 2015

Abstract
Mesoscale models are considered to be the state of the art in modeling mountain-wave flows. Herein, the authors investigate the role and accuracy of planetary boundary layer (PBL) parameterizations in handling the interaction between large-scale mountain waves and the atmospheric boundary layer. To that end, recent large-eddy simulation (LES) results of mountain waves over a symmetric two-dimensional bell-shaped hill are used and compared to four commonly used PBL schemes. It is found that one-dimensional PBL parameterizations produce reasonable agreement with the LES results in terms of vertical wavelength, amplitude of velocity, and turbulent kinetic energy distribution in the downhill shooting-flow region. However, the assumption of horizontal homogeneity in PBL parameterizations does not hold in the context of these complex flow configurations. This inappropriate modeling assumption results in a vertical wavelength shift, producing errors of approximately 10 m s−1 at downstream locations because of the presence of a coherent trapped lee wave that does not mix with the atmospheric boundary layer. In contrast, horizontally integrated momentum flux derived from these PBL schemes displays a realistic pattern. Therefore, results from mesoscale models using ensembles of one-dimensional PBL schemes can still potentially be used to parameterize drag effects in general circulation models. Nonetheless, three-dimensional PBL schemes must be developed in order for mesoscale models to accurately represent complex terrain and other types of flows where one-dimensional PBL assumptions are violated.
Predicting Summer Arctic Sea Ice Concentration Intraseasonal Variability Using a Vector Autoregressive Model*
Authors: Wang Lei , Yuan Xiaojun , Ting Mingfang , Li Cuihua 
Published: December 2015

Abstract
Recent Arctic sea ice changes have important societal and economic impacts and may lead to adverse effects on the Arctic ecosystem, weather, and climate. Understanding the predictability of Arctic sea ice melting is thus an important task. A vector autoregressive (VAR) model is evaluated for predicting the summertime (May–September) daily Arctic sea ice concentration on the intraseasonal time scale, using only the daily sea ice data and without direct information of the atmosphere and ocean. The intraseasonal forecast skill of Arctic sea ice is assessed using the 1979–2012 satellite data. The cross-validated forecast skill of the VAR model is found to be superior to both the anomaly persistence and damped anomaly persistence at lead times of ~20–60 days, especially over northern Eurasian marginal seas and the Beaufort Sea. The daily forecast of ice concentration also leads to predictions of ice-free dates and September mean sea ice extent. In addition to capturing the general seasonal melt of sea ice, the model is also able to capture the interannual variability of the melting, from partial melt of the marginal sea ice in the beginning of the period to almost a complete melt in the later years. While the detailed mechanism leading to the high predictability of intraseasonal sea ice concentration needs to be further examined, the study reveals for the first time that Arctic sea ice can be predicted statistically with reasonable skill at the intraseasonal time scales given the small signal-to-noise ratio of daily data.
The Meridional Mode in an Idealized Aquaplanet Model: Dependence on the Mean State
Authors: Zhang Honghai , Clement Amy , Medeiros Brian 
Published: December 2015

Abstract
The meridional mode provides a source of predictability for the tropical climate variability and change on seasonal and longer time scales by transporting extratropical climate signals into the tropics. Previous research shows that the tropical imprint of the meridional mode is constrained by the interhemispheric asymmetry of the tropical mean climate state. In this study the constraint of the zonal asymmetry is investigated in an AGCM thermodynamically coupled with an aquaplanet slab ocean model. The strategy is to modify the zonal asymmetry of the mean climate state and examine the response of the meridional mode. Presented here are two simulations of different zonal asymmetries in the mean state. In the zonally symmetric case, the meridional mode operates throughout the subtropics but only becomes evident after removing a dominant global-scale eastward-propagating mode. In the zonally asymmetric case, the meridional mode operates only in regions where trade winds converge onto the equator and has an enlarged spatial scale due to the modified mean climate including cold sea surface and weak trade winds. In both simulations, the tropical imprint of the meridional mode is constrained by the north–south seasonal migration of the intertropical convergence zone. These results suggest that the meridional mode does not require the zonal asymmetry of the mean state but is intrinsic to the subtropical ocean–atmosphere coupled system with its characteristics subject to the mean climate state. The implication is that the internal climate variability needs to be assessed in the context of the mean climate state.