bluuebunny/crossref_metadata_2025_split huggingface dataset:
RETRACTED ARTICLE: Linc00210 drives Wnt/β-catenin signaling activation and liver tumor progression through CTNNBIP1-dependent manner
Authors: Fu Xiaomin , Zhu Xiaoyan , Qin Fujun , Zhang Yong , Lin Jizhen , Ding Yuechao , Yang Zihe , Shang Yiman , Wang Li , Zhang Qinxian , Gao Quanli 
Published: March 2018

Abstract
Background
Liver tumor initiating cells (TICs) have self-renewal and differentiation properties, accounting for tumor initiation, metastasis and drug resistance. Long noncoding RNAs are involved in many physiological and pathological processes, including tumorigenesis. DNA copy number alterations (CNA) participate in tumor formation and progression, while the CNA of lncRNAs and their roles are largely unknown.

Methods
LncRNA CNA was determined by microarray analyses, realtime PCR and DNA FISH. Liver TICs were enriched by surface marker CD133 and oncosphere formation. TIC self-renewal was analyzed by oncosphere formation, tumor initiation and propagation. CRISPRi and ASO were used for lncRNA loss of function. RNA pulldown, western blot and double FISH were used to identify the interaction between lncRNA and CTNNBIP1.

Results
Using transcriptome microarray analysis, we identified a frequently amplified long noncoding RNA in liver cancer termed linc00210, which was highly expressed in liver cancer and liver TICs. Linc00210 copy number gain is associated with its high expression in liver cancer and liver TICs. Linc00210 promoted self-renewal and tumor initiating capacity of liver TICs through Wnt/β-catenin signaling. Linc00210 interacted with CTNNBIP1 and blocked its inhibitory role in Wnt/β-catenin activation. Linc00210 silencing cells showed enhanced interaction of β-catenin and CTNNBIP1, and impaired interaction of β-catenin and TCF/LEF components. We also confirmed linc00210 copy number gain using primary hepatocellular carcinoma (HCC) samples, and found the correlation between linc00210 CNA and Wnt/β-catenin activation. Of interest, linc00210, CTNNBIP1 and Wnt/β-catenin signaling targeting can efficiently inhibit tumor growth and progression, and liver TIC propagation.

Conclusion
With copy-number gain in liver TICs, linc00210 is highly expressed along with liver tumorigenesis. Linc00210 drives the self-renewal and propagation of liver TICs through activating Wnt/β-catenin signaling. Linc00210 interacts with CTNNBIP1 and blocks the combination between CTNNBIP1 and β-catenin, driving the activation of Wnt/β-catenin signaling. Linc00210-CTNNBIP1-Wnt/β-catenin axis can be targeted for liver TIC elimination.
Whole-Genome and Whole-Exome Sequencing in Pediatric Oncology: An Assessment of Parent and Young Adult Patient Knowledge, Attitudes, and Expectations
Authors: Oberg Jennifer A. , Ruiz Jenny , Ali-Shaw Trisha , Schlechtweg Kathryn A. , Ricci Angela , Kung Andrew L. , Chung Wendy K. , Appelbaum Paul S. , Glade Bender Julia L. , Levine Jennifer M. 
Published: March 2018

Purpose
The complexity of results generated from whole-genome sequencing (WGS) and whole-exome sequencing (WES) adds challenges to obtaining informed consent in pediatric oncology. Little is known about knowledge of WGS and WES in this population, and no validated tools exist in pediatric oncology.

Methods
We developed and psychometrically evaluated a novel WGS and WES knowledge questionnaire, the Precision in Pediatric Sequencing Knowledge Questionnaire (PIPseqKQ), to identify levels of understanding among parents and young adult cancer survivors (≥ 18 years old), off therapy for at least 1 year from a single-institution pediatric oncology outpatient clinic. Participants also completed health literacy and numeracy questionnaires. All participants provided written informed consent.

Results
One hundred eleven participants were enrolled: 76 were parents, and 35 were young adults. Of the total cohort, 77 (69%) were female, 63 (57%) self-identified as white, and 74 (67%) self-identified as non-Hispanic. Sixty-six (59%) had less than a college degree. Adequate health literacy (n = 87; 80%) and numeracy (n = 89; 80%) were demonstrated. Internal consistency was high (Cronbach’s α = .88), and test-retest reliability was greater than the 0.7 minimum requirement. Scores were highest for genetic concepts related to health and cancer and lowest for WGS and WES concepts. Health literacy and educational attainment were significantly associated with PIPseqKQ scores. Overall, participants felt the benefits of WGS and WES outweighed the potential risks.

Conclusion
Parents and young adult cancer survivors have some genetics knowledge, but they lack knowledge about WGS and WES. The PIPseqKQ is a reliable tool that can identify deficits in knowledge, identify perceptions of risks and benefits of WGS and WES, and help clinicians tailor their consent discussions to best fit families. The PIPseqKQ also may inform the development of educational tools to better facilitate the informed consent process in pediatric oncology.
Food supply and size class depending variations in phytodetritus intake in the benthic foraminifer Ammonia tepida
Authors: Wukovits Julia , Bukenberger Patrick , Enge Annekatrin Julie , Gerg Maximillian , Wanek Wolfgang , Watzka Margarete , Heinz Petra 
Published: March 2018

Ammonia tepida is a common and abundant benthic foraminifer in intertidal mudflats. Benthic foraminifera are primary consumers and detritivores and act as key players in sediment nutrient fluxes.
In this study, laboratory feeding experiments using isotope labeled phytodetritus were carried out with A. tepida collected at the German Wadden Sea to investigate the response of A. tepida to varying food supply. Feeding mode (single pulse, constant feeding; different incubation temperatures) caused strong variations in cytoplasmic carbon and nitrogen cycling, suggesting generalistic adaptations to variations in food availability. To study the influence of intraspecific size to foraminiferal carbon and nitrogen cycling, three size fractions (125 – 250 µm, 250 – 355 µm,&gt;355 µm) of A. tepida specimens were separated. Small individuals showed higher weight specific intake for phytodetritus, especially for phytodetrital nitrogen, highlighting that size distribution within foraminiferal populations is relevant to interpret foraminiferal carbon and nitrogen cycling. These results were used to extrapolate the data to natural populations of living A. tepida in sediment cores, demonstrating the impact of high abundances of small individuals on phytodetritus processing and nutrient cycling. It is estimated, that at high abundances of individuals in the 125 – 250 µm size fraction, Ammonia populations can account for more than 11 % of phytodetritus processing in intertidal benthic communities.
Rapid production of pure recombinant actin isoforms in Pichia pastoris
Authors: Hatano Tomoyuki , Alioto Salvatore , Roscioli Emanuele , Palani Saravanan , Clarke Scott T. , Kamnev Anton , Hernandez-Fernaud Juan Ramon , Sivashanmugam Lavanya , Chapa-y-Lazo Bernardo , Jones Alexandra M. E. , Robinson Robert C. , Sampath Karuna , Mishima Masanori , McAinsh Andrew D. , Goode Bruce L. , Balasubramanian Mohan K. 
Published: March 2018

ABSTRACT
Actins are major eukaryotic cytoskeletal proteins, and they are involved in many important cell functions, including cell division, cell polarity, wound healing and muscle contraction. Despite obvious drawbacks, muscle actin, which is easily purified, is used extensively for biochemical studies of the non-muscle actin cytoskeleton. Here, we report a rapid and cost-effective method to purify heterologous actins expressed in the yeast Pichia pastoris. Actin is expressed as a fusion with the actin-binding protein thymosin β4 and purified by means of an affinity tag introduced in the fusion. Following cleavage of thymosin β4 and the affinity tag, highly purified functional full-length actin is liberated. We purify actins from Saccharomyces cerevisiae and Schizosaccharomyces pombe, and the β- and γ-isoforms of human actin. We also report a modification of the method that facilitates expression and purification of arginylated actin, a form of actin thought to regulate dendritic actin networks in mammalian cells. The methods we describe can be performed in all laboratories equipped for molecular biology, and should greatly facilitate biochemical and cell biological studies of the actin cytoskeleton.
Clinical and imaging features of Kaposiform Hemangioendothelioma
Authors: Hu Pei-an , Zhou Zheng-rong 
Published: March 2018

Objective:
Kaposiform hemangioendothelioma (KHE) is a unique locally aggressive vascular tumor with poor prognosis. The aim of this study is to assess the clinical and imaging features of KHE, and to compare the differences between solitary and diffusive infiltrative subtype further.

Methods:
The clinical and radiological findings of a cohort of 25 cases with histologically proven KHE, between June 2011 and June 2016, were reviewed retrospectively. 7 solitary and 18 diffusive infiltrative subtypes KHE were included. The differences of clinical and imaging features between these two subtypes were compared statistically by Wilcoxon rank sum test and Fisher exact test.

Results:
The median age was 4 months old. 20 cases (80%) were accompanied by Kasabach–Merritt phenomenon (KMP). Most KHE located in trunk and/or extremity. The masses showed inhomogeneous echogenicity and were rich in vascularity on ultrasound; showed isoattenuation relative to muscle on unenhanced CT, isointense (n = 15) or slightly hyperintense (n = 7) T 1 weighted imaging (T 1WI) signal relative to muscle, mainly heterogeneous hyperintense or slightly hyperintense with speckled hypointense (n = 17) T 2WI signal (77%) relative to muscle, and notable (n = 15) and moderate (n = 3) enhancement. Feeding and draining vessels were revealed in 15 cases. Five masses with DWI showed slightly restricted diffusivity, with average apparent diffusion coefficient value of (1.28 ± 0.09) × 10–3 mm2 s– 1. Necrosis and hemorrhage were also found. Compared with solitary ones, diffusive infiltrative KHE were larger, more commonly accompanied by KMP and reticular lymphedema, and more frequently located in trunk and/or extremity.

Conclusion:
Five masses with DWI showed slightly restricted diffusivity. A hypervascular mass accompanied by KMP and reticular lymphedema, with speckled hypointense signal T 2WI signal, especially in pediatric patients, is highly suggestive of the diagnosis of KHE.

Advances in knowledge:
Speckled hypointense signal T 2WI signal, and notable enhancement were unique features of KHE. KHE showed slightly restricted diffusivity on DWI, commonly accompanied by KMP and reticular lymphedema.
Persistence and Procyclicality in Margin Requirements
Authors: Glasserman Paul , Wu Qi 
Published: March 2018

Margin requirements for derivative contracts serve as a buffer against the transmission of losses through the financial system by protecting one party to a contract against default by the other party. However, if margin levels are proportional to volatility, then a spike in volatility leads to potentially destabilizing margin calls in times of market stress. Risk-sensitive margin requirements are thus procyclical in the sense that they amplify shocks. We use a GARCH model of volatility and a combination of theoretical and empirical results to analyze how much higher margin levels need to be to avoid procyclicality while reducing counterparty credit risk. Our analysis compares the tail decay of conditional and unconditional loss distributions with comparable stable and risk-sensitive margin requirements. Greater persistence and burstiness in volatility leads to a slower decay in the tail of the unconditional distribution and a higher buffer needed to avoid procyclicality. The tail decay drives other measures of procyclicality as well. Our analysis points to important features of price time series that should inform “antiprocyclicality” measures but are missing from current rules.This paper was accepted by Noah Gans, stochastic models and simulation.
The dentist's role in smoking cessation management — a literature review and recommendations: part 1
Authors: Keat Ross M , Fricain Jean-Christophe , Catros Sylvain , Monteiro Luis , Silva Luis Martins da , Freitas Marcio Diniz , Brandariz Angel , Lodi Giovanni , Pispero Alberto , Warnakulasuriya Saman , Khan Zahid , Albuquerque Rui 
Published: March 2018

Abstract: In Europe, 29% of individuals identify as smokers, with tobacco use directly related to 650,000 mortalities each year across the continent; roughly 14% of all deaths. From a dental perspective, smoking is directly implicated in numerous chronic, and potentially life-threatening, sequelae which exclusively affect the oral cavity. By familiarizing the dental team with gold-standard cessation advice, it can be ensured that smokers are assisted at every available opportunity. Dentists should aim to give cessation advice to smokers based on how willing they are to change their smoking habit. The authors are developing an online resource to assist with smoking cessation advice. It is available at http://www.smokingcessationtraining.com/ CPD/Clinical Relevance: Dentists will see many smokers regularly, and advice should be given routinely to this cohort of patients. By improving understanding of potential oral sequelae and identifying individuals who may wish to quit, targeted advice can be offered to increase cessation success. Brief patient-centred advice ensures the highest chance of delivering successful smoking cessation, alongside safeguarding time for the dentist to examine and treat the individual.
An alternative approach to replacement of an avulsed central incisor
Authors: Lakhani Amar A , Flett Andrew M C 
Published: March 2018

Abstract: This report describes the case of a young girl who underwent orthodontic and restorative treatment following the ankylosis of an UR1. The case sets out an alternative treatment to prosthetic replacement following the loss of an incisor tooth. CPD/Clinical Relevance: This case report gives an insight into an alternative treatment using orthodontics to provide a cost-effective and aesthetic result following avulsion of a central incisor.
Soft tissue profile around dental implants placed in the aesthetic zone — a biological update
Authors: Gupta Sonam , Narayan Aparna Ichalangod , Vijay Ashita , Balakrishnan Dhanasekar 
Published: March 2018

Abstract: The success attained with endosseous implants is well documented in the literature but complications are inevitable due to high risk factors associated with bacterial related breakdown of osseointegration and peri-implant mucosa. It is now apparent that maintenance of a complete seal of the gingival cuff around implants is paramount for achieving predictable outcomes, as there is no room for error when multiple implants are being placed in the maxillary anterior region. However, the restorative dentist not only faces a challenge in restoring missing teeth but also the missing volume of three-dimensional gingival envelope encompassing them.CPD/Clinical Relevance: This article has focused on the comprehensive understanding and integration of various biological elements that are imperative in the rapidly advancing field of implantology.
SBML Level 3 Package: Flux Balance Constraints version 2
Authors: Olivier Brett G. , Bergmann Frank T. 
Published: March 2018

AbstractConstraint-based modeling is a well established modeling methodology used to analyze and study biological networks on both a medium and genome scale. Due to their large size and complexity such steady-state flux models are, typically, analyzed using constraint-based optimization techniques, for example, flux balance analysis (FBA). The Flux balance constraints (FBC) Package extends SBML Level 3 and provides a standardized format for the encoding, exchange and annotation of constraint-based models. It includes support for modeling concepts such as objective functions, flux bounds and model component annotation that facilitates reaction balancing. Version two expands on the original release by adding official support for encoding gene-protein associations and their associated elements. In addition to providing the elements necessary to unambiguously encode existing constraint-based models, the FBC Package provides an open platform facilitating the continued, cross-community development of an interoperable, constraint-based model encoding format.
Effects of exposure and information structure in native and non-native pronoun resolution in French
Authors: Colonna Saveria , Schimke Sarah , de la Fuente Israel , Kuck Sascha , Hemforth Barbara 
Published: March 2018

AbstractThe present study investigated pronoun resolution strategies in French native speakers and in German-speaking learners of French. French and German differ in antecedent preferences in ambiguous constructions such asThe postman hit the pirate before he went home: while French shows a N2-preference, German shows a N1-preference. This difference is explained by effects of exposure to an unambiguous alternative construction referring to N1 that exists in French, but not in German (Hemforth et al. 2010, Language specific preferences in anaphor resolution: Exposure or gricean maxims? In Steallan Ohlsson and Richard Catarambone (eds.),32nd Annual Conference of the Cognitive Science Society, 2218–2223. Austin, TX: Cognitive Science Society). In questionnaires, we tested French active and passive sentences to investigate (a) whether the L2-learners would apply the same strategy as natives in the active condition (i.e. N2-preference), and (b) whether the explicit topicalization of a referent as a consequence of passivization influences interpretation preferences in both groups (resulting in more N1 choices). The results show that German learners prefer the N1 more often than the French natives in the active condition. Crucially, the number of N1 choices increased in both groups in the passive condition. These results suggest that L2-learners might have difficulties acquiring strategies based on the frequency and availability of alternative constructions in the L2, and provide further evidence for the importance of information-structure-based strategies in L1 and L2 pronoun resolution.
Information structure in canonical and scrambled dative orders in L2 Korean
Authors: Park Kyae-Sung 
Published: March 2018

AbstractThe Given-before-New Principle holds in adult speech: Given information tends to precede new information. For instance, in the English dative alternation, the given-theme – i.e., the direct object [DO] – tends to precede the new-recipient – i.e., the indirect object [IO] – in the prepositional dative (e.g.,John gave the books to some children), while the given-recipient tends to precede the new-theme in the double object dative (e.g.,John gave the children some books). Likewise, in Korean datives, the given-recipient tends to occur earlier in the canonical [IO–DO] order, while the given-theme tends to occur earlier in the scrambled [DO–IO] order. This study investigates whether L1-English adult L2ers of Korean, who have knowledge of the Given-before-New Principle in their L1, automatically adhere to it in their interlanguage. L2ers’ choices between canonical and scrambled dative orders were tested using novel oral contextualized preference tasks. The native speakers of Korean overwhelmingly complied with the Given-before-New Principle. However, the intermediate-to-advanced L2ers exhibited a strong bias for the (default) canonical [IO–DO] order, which apparently overrode the Given-before-New Principle. The findings of analyses by group and by individual are discussed in terms of frequency, syntactic complexity, processing, and null arguments.
POTENSI RENDAMAN TSUNAMI DI WILAYAH LEBAK BANTEN
Authors: Sugianto Dedi , Nurjaya I Wayan , MN Natih Nyoman , Pandoe Wahyu W 
Published: March 2018

Studi ini mengkaji tentang potensi bahaya tsunami yang terjadi di pesisir pantai Lebak Banten. Zona subduksi di selatan Jawa merupakan wilayah yang menarik untuk dipelajari, karena didalam zona ini berpotensi terjadi gempabumi yang dapat menyebabkan terjadinya tsunami. Wilayah Kabupaten Lebak Banten terletak di bagian selatan Jawa Barat dan berhadapan dengan sumber tsunami di Samudra Hindia. Tujuan penelitian ini adalah untuk mengetahui run- up yang terjadi akibat tsunami dari gempabumi di celah kegempaan (seismic gap) sekitar Palung Jawa, menghitung waktu tempuh yang diperlukan oleh tsunami tersebut hingga mencapai wilayah pesisir Lebak Banten dan mengetahui potensi rendaman di wilayah tersebut. Metode yang digunakan dalam penelitian ini meliputi simulasi skenario tsunami dari gempa bumi dengan kekuatan 8,7 SR dengan menggunakan model TUNAMI-N2 dan analisis hasil keluaran model. Berdasarkan analisis hasil simulasi menggunakan TUNAMI-N2 tersebut, run-up yang dapat terjadi akibat tsunami dari gempa bumi di celah kegempaan sekitar Palung Jawa umumnya mengikuti pola topografi ketinggian wilayah. Waktu tempuh yang diperlukan oleh gelombang tsunami pertama hingga mencapai wilayah pesisir Lebak berkisar antara 15 hingga 17 menit. Potensi rendaman tsunami wilayah pesisir Lebak jika terjadi gempabumi di celah kegempaan sekitar Palung Jawa pada umumnya terdapat pada kategori sangat berbahaya mengingat tinggi run-up dapat mencapai lebih dari 3 meter dari permukaan dan jarak maksimum rendaman mencapai 1,7 km dari garis pantai, dengan luas genangan 1271,34 ha.
DAMPAK PENGANGKATAN ARTEFAK BAWAH LAUT TERHADAP KERUSAKAN TERUMBU KARANG BERDASARKAN INDIKATOR TUTUPAN SUBSTRAT DAN PARAMETER LINGKUNGAN
Authors: Johan Ofri , Dillenia Ira , Troa Rainer Arif 
Published: March 2018

Artefak bawah laut yang merupakan bagian dari situs arkeologi maritimyang memiliki nilai sejarah yang tinggi dan sering ditemukan pada kawasan ekosistem terumbu karang. Keberadaannya mungkin dapat memberikan dampak positif dibidang pariwisata, namun bagaimana dampaknya terhadap lingkungan belum dikaji jika dilakukan pengangkatan apabila artefaknya memiliki nilai lebih tinggi yang perlu diselamatkan. Penelitian ini telah dilakukan pada Situs Kelarik Dalam, Perairan Karang Semapi, Natuna pada tiga waktu berbeda yaitu tanggal 11 – 22 April 2016, 6 – 11 Mei 2017 dan 7-11 September 2017. Penelitian bertujuan untuk melihat dampak pengangkatan artefak terhadap kondisi terumbu karang disekitarnya sebagai dasar informasi untuk mengantisipasi rencana pengangkatan artefak secara resmi nanti oleh pemerintah. Penelitian menggunakan metode transek foto bawah air dengan ukuran 58x44 cm. Garis transek dibentangkan dari titik nol di lokasi pusat artefak ditemukan dengan membentangkan 4 rol meteran sepanjang 30 m ke semua arah mata angin yaitu utara, selatan, timur dan barat. Pengambilan foto dilakukan setiap 1 meter kemudian dianalisa dengna program CPCe dengan menetapkan 30 titik sampel setiap fotonya. Masing-masing transek dibagi 3 zona sesuai jarak dari pusat artefak yaitu 0-10 m (Zona 1), 10-20 m (Zona 2) dan 20-30 m (Zona 3), berturut-turut mewakili lokasi terdekat, sedang dan terjauh. Data yang dikumpulkan adalah tutupan karang hidup dan tutupan substrat kategori lain danjenis karang. Hasil penelitian diperoleh terdapat perbedaan tutupan karang hidup antara lokasi yang dekat 0-10m (6,9%), sedang 10-20m (20,3%) dan terjauh 20-30m (18,5%). Lokasi terdekat terdampak oleh aktifitas pengangkatan artefak akibat sering terpapar sedimen dan kekeruhan perairan dengan lebih jelas lagi ditandai oleh tingginya rubble (26,4%) dan rock (50,4%). Jarak sedang dan terjauh memiliki tutupan karang yang lebih tinggi dibandingkan lokasi terdekat. Perlu pertimbangan yang bijak untuk pengangkatan artefak yang ada di kawasan ekosistem terumbu karang dengan memperhatikan dampak kematian terhadap biota yang ada di sekitarnya termasuk terumbu karang.
Partridge, Christopher and Marcus Moberg (eds) 2017. 'The Bloomsbury Handbook of Religion and Popular Music'. London: Bloomsbury. xiv + 403pp. £130.00. ISBN: 978-1-4742-3733-8 (hbk).
Authors: Pemberton Barbara 
Published: March 2018

Partridge, Christopher and Marcus Moberg (eds) 2017. The Bloomsbury Handbook of Religion and Popular Music. London: Bloomsbury. xiv + 403pp. £130.00. ISBN: 978-1-4742-3733-8 (hbk).