bluuebunny/crossref_metadata_2025_split huggingface dataset:
Comprehensive Mutation and Copy Number Profiling in Archived Circulating Breast Cancer Tumor Cells Documents Heterogeneous Resistance Mechanisms
Authors: Paoletti Costanza , Cani Andi K. , Larios Jose M. , Hovelson Daniel H. , Aung Kimberly , Darga Elizabeth P. , Cannell Emily M. , Baratta Paul J. , Liu Chia-Jen , Chu David , Yazdani Maryam , Blevins Allen R. , Sero Valeria , Tokudome Nahomi , Thomas Dafydd G. , Gersch Christina , Schott Anne F. , Wu Yi-Mi , Lonigro Robert , Robinson Dan R. , Chinnaiyan Arul M. , Bischoff Farideh Z. , Johnson Michael D. , Park Ben H. , Hayes Daniel F. , Rae James M. , Tomlins Scott A. 
Published: December 2017

Abstract
Addressing drug resistance is a core challenge in cancer research, but the degree of heterogeneity in resistance mechanisms in cancer is unclear. In this study, we conducted next-generation sequencing (NGS) of circulating tumor cells (CTC) from patients with advanced cancer to assess mechanisms of resistance to targeted therapy and reveal opportunities for precision medicine. Comparison of the genomic landscapes of CTCs and tissue metastases is complicated by challenges in comprehensive CTC genomic profiling and paired tissue acquisition, particularly in patients who progress after targeted therapy. Thus, we assessed by NGS somatic mutations and copy number alterations (CNA) in archived CTCs isolated from patients with metastatic breast cancer who were enrolled in concurrent clinical trials that collected and analyzed CTCs and metastatic tissues. In 76 individual and pooled informative CTCs from 12 patients, we observed 85% concordance in at least one or more prioritized somatic mutations and CNA between paired CTCs and tissue metastases. Potentially actionable genomic alterations were identified in tissue but not CTCs, and vice versa. CTC profiling identified diverse intra- and interpatient molecular mechanisms of endocrine therapy resistance, including loss of heterozygosity in individual CTCs. For example, in one patient, we observed CTCs that were either wild type for ESR1 (n = 5/32), harbored the known activating ESR1 p.Y537S mutation (n = 26/32), or harbored a novel ESR1 p.A569S (n = 1/32). ESR1 p.A569S was modestly activating in vitro, consistent with its presence as a minority circulating subclone. Our results demonstrate the feasibility and potential clinical utility of comprehensive profiling of archived fixed CTCs. Tissue and CTC genomic assessment are complementary, and precise combination therapies will likely be required for effective targeting in advanced breast cancer patients.
Significance: These findings demonstrate the complementary nature of genomic profiling from paired tissue metastasis and circulating tumor cells from patients with metastatic breast cancer. Cancer Res; 78(4); 1110–22. ©2017 AACR.
Marcelo Pombo: condições de formação de um artista improvável
Authors: Cerviño Mariana Eva 
Published: December 2017

O artigo revisa a trajetória social do artista Marcelo Pombo, referência na renovação estética na Argentina pós-ditadura. Seu caso é tomado como paradigma de um tipo de artista que, carente de capital intelectual ou econômico, ingressa no campo artístico durante os anos iniciais da democracia, apresentando um universo estético plebeu que confronta os estilos legítimos. Por meio da análise de distintas etapas de seu itinerário – origem familiar, formação, trajetória laboral, relações pessoais e, sobretudo, sua experiência homossexual e posterior participação no ativismo gay – o artigo analisa as bases sociais de uma estratégia artística dissidente cujo traço central é a reivindicação da autonomia perdida
Distribuição espacial da transição religiosa no Brasil
Authors: Alves José Eustáquio Diniz , Cavenaghi Suzana Marta , Barros Luiz Felipe Walter , Carvalho Angelita Alves de 
Published: December 2017

A população brasileira vive uma grande transformação no perfil religioso. Por um lado, há um aumento da pluralidade religiosa e, por outro, uma tendência de mudança de hegemonia entre católicos e evangélicos. O objetivo deste artigo é focar nesse segundo aspecto do fenômeno transicional, fornecendo um panorama da transição religiosa brasileira entre 1991 e 2010, a partir de um indicador sobre a razão entre evangélicos e católicos (rec). Além da análise descritiva da distribuição geográfica nos níveis municipal e regional, apresentam-se mapas municipais darec em 2000 e 2010, mostrando as mudanças ocorridas no período, assim como uma análise de autocorrelação espacial local. O artigo contribui para o entendimento da evolução espacial da transição religiosa entre os dois grandes grupos cristãos no Brasil.
Sintonia e amizade entre patrões e donos de morro: perspectivas comparativas entre o comércio varejista de drogas em São Paulo e no Rio de Janeiro
Authors: Hirata Daniel Veloso , Grillo Carolina Christoph 
Published: December 2017

Neste artigo será esboçada uma comparação do mercado varejista de drogas em favelas e bairros de periferias das cidades de São Paulo e Rio de Janeiro. As reflexões aqui apresentadas baseiam-se no trabalho de campo etnográfico realizado nas duas cidades, bem como na revisão de estudos sobre o tema. Ancorado em pesquisas empíricas, explora a mecânica das relações entre os mercados do “crime” e as forças da ordem, envolvida na gestão da vida e morte da população pobre. Em face das guerras concorrenciais entre facções cariocas e da ideia de paz associada à hegemonia de um único comando em São Paulo, a comparação concentra-se nas figuras do “dono do morro” e da “amizade” no Rio de Janeiro e do “patrão” e da “sintonia” em São Paulo, atentando-se para o cruzamento de três dimensões: os lugares de mercado do varejo de drogas; as dinâmicas dos coletivos criminais; e os distintos arranjos de poder estabelecidos entre os traficantes e os agentes das forças da ordem.
England, Usury and the Jews in the Mid-Seventeenth Century
Authors: Yuval-Naeh Avinoam 
Published: December 2017

Abstract
The first half of the seventeenth century saw a profound structural shift in the English economy and economic discourse. One of the controversial issues under dispute was the nature of usury. This paper sheds light on the enduring association of Jews with usury and seeks to demonstrate how the two concepts came to be decoupled in mid-seventeenth century England. It focuses on two case studies—the Jewish readmission polemic and Harrington’s Oceana—and examines two different channels through which this decoupling occurred. Reading these cases through the perspective of usury offers new insights not only into developing attitudes towards the Jews, but also into the different ways of coping with changing relations between traditional theological-economic paradigms and a shifting social reality in early modern England.
Burgeoning Practice of Southeast Asian States to Protect the Marine Environment from the Effects of International Shipping
Authors: McCreath Millicent 
Published: December 2017

The marine environment of Southeast Asia is amongst the most ecologically important in the world. A substantial volume of international shipping passes through the region which can have a deleterious effect on the environment due to impacts including operational and accidental discharges, collisions and groundings. Recently Malaysia, Indonesia, Viet Nam and the Philippines have introduced or commenced work towards proposals for special measures to be adopted by the International Maritime Organization (imo) targeting the risks of shipping. These proposed special measures are in the form of “particularly sensitive sea areas” (pssas), and are being developed under a cooperation program between the imo and the Norwegian aid organisation (Norad). This article analyses the pssa proposals currently underway or recently finalised by Malaysia, Indonesia, Viet Nam and the Philippines, and the legal framework for the establishment and implementation of measures for environmental protection under the law of the sea and the imo.
Cytotaxonomy of Allium (Amaryllidaceae) subgenera Cyathophora and Amerallium sect. Bromatorrhiza
Authors: LI MIN-JIE , GUO XIAN-LIN , LI JUAN , ZHOU SONG-DONG , LIU QING , HE XING-JIN 
Published: December 2017

In the present study, we examined the karyotype data of subg. Cyathophora and sect. Bromatorrhiza, to determine some disputed karyotypes (e.g., A. spicatum and A. fasciculatum), and further to estimate the karyotype evolution along their phylogenetic frameworks. Our results revealed a fairly stable basic chromosome number (x = 8) in subg. Cyathophora, and we therefore revised x = 8 as the basic chromosome number of A. spicatum, rather than x = 10 mostly due to misidentifications concerning A. fasciculatum. The karyotype asymmetry analyses for subg. Cyathophora indicated that, the karyotype evolution for diploid species showing a high karyotype similarity was mainly due to intrachromosomal changes, while the interchromosomal changes were linked to the evolution of tetraploid populations. However, indeed different dysploid basic chromosome numbers (x = 7, 10, 11) and greatly different karyotype patterns occurred in sect. Bromatorrhiza, corresponding to the subsections revealed by molecular evidence. The combined evidence suggested that species with x = 11 compose a segmental allotriploid complex. It was also indicated that karyotype pattern of polyploids usually is closely related with their diploid progenitors.
The Centennial Variation of El Niño Impact on Atlantic Tropical Cyclones
Authors: Yang Ruixin , Fairley Allison , Park Wonsun 
Published: December 2017

Abstract
Predicting tropical cyclone (TC) activity becomes more important every year while the understanding of what factors impact them continues to be complicated. El Niño–Southern Oscillation (ENSO) is one of the primary factors impacting the activities in both the Pacific and the Atlantic, but an extensive examination of the fluctuation in this system has yet to be studied in its entirety. This article analyzes the ENSO impacts on the Atlantic tropical cyclone activity during the assessed warm and cold years to show the dominant centennial-scale variation impact. This study looks to plausibly link this variation to the Southern Ocean centennial variability, which is rarely mentioned in any factors affecting the Atlantic tropical cyclone activity. This centennial variability could be used to enhance future work related to predicting tropical cyclones.
Testing the Sensitivity of the Extratropical Response to the Location, Amplitude, and Propagation Speed of Tropical Convection
Authors: Goss Michael , Feldstein Steven B. 
Published: December 2017

Abstract
The dynamical core of a dry global model is used to investigate the role of central Pacific versus warm pool tropical convection on the extratropical response over the North Pacific and North America. A series of model runs is performed in which the amplitude of the warm pool (WP) and central Pacific (CP) heating anomalies associated with the MJO and El Niño–Southern Oscillation (ENSO) is systematically varied. In addition, model calculations based on each of the eight MJO phases are performed, first using stationary heating, and then with heating corresponding to a 48-day MJO cycle and to a 32-day MJO cycle.
In all model runs, the extratropical response to tropical convection occurs within 7–10 days of the convective heating. The response is very sensitive to the relative amplitude of the heating anomalies. For example, when heating anomalies in the WP and CP have similar amplitude but opposite sign, the amplitude of the extratropical response is much weaker than is typical for the MJO and ENSO. For the MJO, when the WP heating anomaly is much stronger than the CP heating anomaly (vice versa for ENSO), the extratropical response is amplified. For the MJO heating, it is found that the extratropical responses to phases 4 and 8 are most distinct. A likely factor contributing to this distinctiveness involves the relative amplitude of the two heating anomalies. The stationary and moving (48- and 32-day) heating responses are very similar, revealing a lack of sensitivity to the MJO phase speed.
Scale Interactions in Turbulence for Mountain Blowing Snow
Authors: Aksamit N. O. , Pomeroy J. W. 
Published: December 2017

Abstract
Blowing snow particle transport responds to wind motions across many length and time scales. This coupling is nonlinear by nature and complicated in atmospheric flows where eddies of many sizes are superimposed. In mountainous terrain, wind flow descriptions are further complicated by topographically influenced or enhanced flows. To improve the current understanding and modeling of blowing snow transport in complex terrain, statistically significant timing and frequencies of wind–snow coupling were identified in high-frequency observations of surface blowing snow and near-surface turbulence from a mountain field site in the Canadian Rockies. Investigation of the mechanisms influencing near-surface, high-frequency turbulence and snow concentration fluctuations provided strong evidence for amplitude modulation from large-scale motions. The large-scale atmospheric motions modulating near-surface turbulence and snow transport were then compared to specific quadrant analysis structures recently identified as relevant for outdoor blowing snow transport. The results suggest that large atmospheric structures modulate the amplitude of high-frequency turbulence and modify turbulence statistics typically used to model blowing snow. Additionally, blowing snow was preferentially redistributed under the footprint of these same sweep motions, with both low- and high-frequency coherence increasing in their presence.
Current Practices and the Provider Perspectives on Inconclusive Genetic Test Results for Osteogenesis Imperfecta in Children with Unexplained Fractures: ELSI Implications
Authors: Youngblom Emily , Murray Mitzi Leah , Byers Peter H. 
Published: December 2017

Genetic testing can be used to determine if unexplained fractures in children could have resulted from a predisposition to bone fractures, e.g., osteogenesis imperfecta. However, uncertainty is introduced if a variant of unknown significance (VUS) is identified. Proper interpretation of VUS in these situations is critical because of its influence on clinical care and in court rulings. This study sought to understand how VUS are interpreted and used by practitioners when there is a differential diagnosis including both osteogenesis imperfecta and non-accidental injury.A 15-question survey was emailed to physicians who requested analysis of two genes, COL1A1 and COL1A2, from the University of Washington from 2005-2013 for patient cases involving suspicion of child abuse.Among the 89 participants, responses differed about when genetic testing should be ordered for osteogenesis imperfecta, who should be consulted about utilization of VUS test results, follow-up procedures, and who should receive the VUS results.There are no clear guidelines for how to interpret and follow up on VUS. In the legal setting, misinterpreted VUS could lead to unintended consequences and deleterious ramifications for family members. The need for better practice guidelines to help promote more equitable handling of these sensitive legal cases is clear.
U.S. State Ignition Interlock Laws for Alcohol Impaired Driving Prevention: A 50 State Survey and Analysis
Authors: Shulman-Laniel Juliana , Vernick Jon S. , McGinty Beth , Frattaroli Shannon , Rutkow Lainie 
Published: December 2017

Objectives:Over the past two decades, all U.S. states have incorporated alcohol ignition interlock technology into sentencing laws for individuals convicted of driving while intoxicated (DWI). This article provides the first 50-state summary of these laws to include changes in the laws over time and their effective dates. This information is critical for policy makers to make informed decisions and for researchers to conduct quantitative evaluation of the laws.Methods:Standard legal research and legislative history techniques were used, including full-text searches in the Westlaw legal database and identification of state session laws. Because ignition interlock device (IID) laws often change over time, we identified the date of each law's initial enactment as well as the effective date of each law in its current form.Results:Beginning with California and Washington in 1987, all 50 states have enacted IID laws as a sentencing option for DWI offenders. Initially, most of these laws were discretionary. Today, however, 48 states mandate IID installation for at least some types of DWI offenders to maintain lawful driving privileges. Of these, 27 mandate an IID for all offenders; seven mandate an IID for repeat offenders only; and 21 for some combination of specific groups of DWI offenders, including repeat offenders, offenders with a blood alcohol content above a legislatively-specified level, and aggravated offenders (including those who harm someone else or who are convicted of a DWI with a child in the vehicle).Conclusion:States have wrestled with a number of IID policy issues, including for whom to mandate IIDs and whether to suspend a license for DWI prior to reinstating driving privileges with or without an IID. By understanding how state interlock laws differ, policy makers and researchers can ultimately better ascertain the impact of these laws.
Adsorption of phenanthrene by stevensite and sepiolite
Authors: González-Santamaría D.E. , López E. , Ruiz A. , Fernández R. , Ortega A. , Cuevas J. 
Published: December 2017

AbstractPolycyclic aromatic hydrocarbons are increasingly widespread pollutants introduced into the environment via oil spillage and incomplete anthropogenic combustion of fossil fuels. In this work, the capacity of stevensite and sepiolite to adsorb phenanthrene (PHE) has been evaluated experimentally by batch testing. Both clay minerals are distributed widely in the Madrid Basin, are of low cost and can be applied with minimal environmental impact. In the context of few previous studies, adsorption isotherms have been developed to understand the adsorption mechanisms and were fitted to the Freundlich and linear models with virtually the same results. Although stevensite showed greater adsorption capacity than sepiolite, the isotherms were constructed for equilibrium concentrations up to 0.8–1.0 mg/L due to the low solubility of PHE in water. When compared to other adsorbents the ability of stevensite to retain PAHs should be examined further in order to add and complement novel functions in reactive barriers.
The long reads ahead: de novo genome assembly using the MinION
Authors: de Lannoy Carlos , de Ridder Dick , Risse Judith 
Published: December 2017

Nanopore technology provides a novel approach to DNA sequencing that yields long, label-free reads of constant quality. The first commercial implementation of this approach, the MinION, has shown promise in various sequencing applications. This review gives an up-to-date overview of the MinION's utility as a de novo sequencing device. It is argued that the MinION may allow for portable and affordable de novo sequencing of even complex genomes in the near future, despite the currently error-prone nature of its reads. Through continuous updates to the MinION hardware and the development of new assembly pipelines, both sequencing accuracy and assembly quality have already risen rapidly. However, this fast pace of development has also lead to a lack of overview of the expanding landscape of analysis tools, as performance evaluations are outdated quickly. As the MinION is approaching a state of maturity, its user community would benefit from a thorough comparative benchmarking effort of de novo assembly pipelines in the near future. An earlier version of this article can be found on bioRxiv.
Threshold-Based Allocation Policies for Inventory Management of Red Blood Cells
Authors: Sarhangian Vahid , Abouee-Mehrizi Hossein , Baron Opher , Berman Oded 
Published: December 2017

Under current regulations, red blood cell (RBC) units can be transfused to patients up to 42 days after donation. However, recent studies suggest an association between the age of transfused RBCs and adverse clinical outcomes for their recipients. Therefore, there is an interest in inventory management policies that could reduce the age of transfused RBCs without compromising their availability. In this work, we study the performance of a practical family of threshold-based allocation policies, designed to trade off the age of RBC transfusions with their availability at hospitals. To this end, we consider a stylized model of a hospital blood bank that procures its required blood from local donations. For this model, we develop a new method to exactly evaluate the performance of the threshold policy in terms of the distribution of the age of allocated units and the proportion of outdates and lost demand. Through numerical and structural results, we obtain new insights on the performance of the threshold policy and in particular on how it compares with shortening the shelf life of RBCs (e.g., from 42 to 28 days). We verify and discuss the robustness of these results to the model assumptions in a simulation study calibrated using data from a Canadian hospital blood bank. The online appendix is available at https://doi.org/10.1287/msom.2017.0650 .
Same-sex love in times of Dutroux: The articulation of homosexuality with child abuse in late 1990s’ Flemish print media
Authors: Vanlee Florian , Van Bauwel Sofie , Dhaenens Frederik 
Published: December 2017

Abstract
In this article, we point to the peculiar conjuncture between the increased emancipation of gay men and lesbian women in late 1990s’ Belgium, and the noted impact of the contemporaneous Dutroux affair on the construction of sexual diversity in the country. Approaching the case as a moral panic, we conducted a discourse analysis of the associated coverage in four mainstream Flemish newspapers, focusing on the articulation of homosexuality with child abuse. In doing so, we show how the folk devil is an a posteriori construct, operating as an empty signifier rather than a defined character, rendering it open to recuperation by other discourses. Hence, we illustrate how the conspiratorial construction of the folk devil in the Dutroux affair provided a space to articulate homosexuality with while still refraining from engaging in an explicitly homophobic rhetoric. Finally, we point to how historical contingencies inhibited the presence of moral entrepreneurs, pointing to moral opportunists as discursive agents instead.
‘Fight like a girl’: Virtual bedroom culture in public school occupations in Brazil
Authors: Castilho Fernanda , Romancini Richard 
Published: December 2017

Abstract
The aim of this work is to analyse a possible association of feminist engagement, young women and media activism through observing the public school occupations (PSO) in the state of São Paulo, Brazil, in 2015. This issue has implications for education, gender and media policies, and citizenship. Cultural Studies was the main theory approach used, especially the concept of bedroom culture. The research design of this study was qualitative and exploratory with focus group data analysis. In the results we observe that gender had a specific relationship with the PSO due to the central role of females in the movement, which was highlighted by the six girls who participated in the focus group. The online and offline involvement with this movement helped increase gender awareness among the youth, enabling the development of a political posture for the confrontation of the oppression and domination of women, especially for girls who had never had contact with feminism out of their bedrooms.