bluuebunny/crossref_metadata_2025_split huggingface dataset:
Genome-wide association analyses of the 15th QTL-MAS workshop data using mixed model based single locus regression analysis
Authors: Fu Wei-Xuan , Wang Chong-Long , Ding Xiang-Dong , Zhang Zhe , Ma Pei-Pei , Weng Zi-Qing , Liu Jian-Feng , Zhang Qin 
Published: May 2012

Abstract

Background
The mixed model based single locus regression analysis (MMRA) method was used to analyse the common simulated dataset of the 15th QTL-MAS workshop to detect potential significant association between single nucleotide polymorphisms (SNPs) and the simulated trait. A Wald chi-squared statistic with df =1 was employed as test statistic and the permutation test was performed. For adjusting multiple testing, phenotypic observations were permutated 10,000 times against the genotype and pedigree data to obtain the threshold for declaring genome-wide significant SNPs. Linkage disequilibrium (LD) in term of D' between significant SNPs was quantified and LD blocks were defined to indicate quantitative trait loci (QTL) regions.

Results
The estimated heritability of the simulated trait is approximately 0.30. 82 genome-wide significant SNPs (P < 0.05) on chromosomes 1, 2 and 3 were detected. Through the LD blocks of the significant SNPs, we confirmed 5 and 1 QTL regions on chromosomes 1 and 3, respectively. No block was detected on chromosome 2, and no significant SNP was detected on chromosomes 4 and 5.

Conclusion
MMRA is a suitable method for detecting additive QTL and a fast method with feasibility of performing permutation test. Using LD blocks can effectively detect QTL regions.
Targeting triple-negative breast cancer cells with the histone deacetylase inhibitor panobinostat
Authors: Tate Chandra R , Rhodes Lyndsay V , Segar H Chris , Driver Jennifer L , Pounder F Nell , Burow Matthew E , Collins-Burow Bridgette M 
Published: May 2012

Abstract
Introduction
Of the more than one million global cases of breast cancer diagnosed each year, approximately fifteen percent are characterized as triple-negative, lacking the estrogen, progesterone, and Her2/neu receptors. Lack of effective therapies, younger age at onset, and early metastatic spread have contributed to the poor prognoses and outcomes associated with these malignancies. Here, we investigate the ability of the histone deacetylase inhibitor panobinostat (LBH589) to selectively target triple-negative breast cancer (TNBC) cell proliferation and survival in vitro and tumorigenesis in vivo.

Methods
TNBC cell lines MDA-MB-157, MDA-MB-231, MDA-MB-468, and BT-549 were treated with nanomolar (nM) quantities of panobinostat. Relevant histone acetylation was verified by flow cytometry and immunofluorescent imaging. Assays for trypan blue viability, 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) proliferation, and DNA fragmentation were used to evaluate overall cellular toxicity. Changes in cell cycle progression were assessed with propidium iodide flow cytometry. Additionally, qPCR arrays were used to probe MDA-MB-231 cells for panobinostat-induced changes in cancer biomarkers and signaling pathways. Orthotopic MDA-MB-231 and BT-549 mouse xenograft models were used to assess the effects of panobinostat on tumorigenesis. Lastly, flow cytometry, ELISA, and immunohistochemical staining were applied to detect changes in cadherin-1, E-cadherin (CDH1) protein expression and the results paired with confocal microscopy in order to examine changes in cell morphology.

Results
Panobinostat treatment increased histone acetylation, decreased cell proliferation and survival, and blocked cell cycle progression at G2/M with a concurrent decrease in S phase in all TNBC cell lines. Treatment also resulted in apoptosis induction at 24 hours in all lines except the MDA-MB-468 cell line. MDA-MB-231 and BT-549 tumor formation was significantly inhibited by panobinostat (10 mg/kg/day) in mice. Additionally, panobinostat up-regulated CDH1 protein in vitro and in vivo and induced cell morphology changes in MDA-MB-231 cells consistent with reversal of the mesenchymal phenotype.

Conclusions
This study revealed that panobinostat is overtly toxic to TNBC cells in vitro and decreases tumorigenesis in vivo. Additionally, treatment up-regulated anti-proliferative, tumor suppressor, and epithelial marker genes in MDA-MB-231 cells and initiated a partial reversal of the epithelial-to-mesenchymal transition. Our results demonstrate a potential therapeutic role of panobinostat in targeting aggressive triple-negative breast cancer cell types.
Quantitative application of poststack acoustic impedance inversion to subsalt reservoir development
Authors: Wagner Charles , Gonzalez Alfonso , Agarwal Vinod , Koesoemadinata Adam , Ng David , Trares Steven , Biles Norman , Fisher Kevin 
Published: May 2012

The cost and complexity of deep-water subsalt development wells is so great that a very limited spatial sampling of the target reservoir is achievable with well data. Thus, the quantitative use of seismic data becomes of paramount importance. Poststack seismic amplitude inversion, and poststack seismic attribute analysis and modeling are frequently employed to perform quantitative prediction of reservoir properties from surface seismic data. Several authors have shown that both absolute and relative acoustic impedance (AAI and RAI, respectively) derived from poststack seismic amplitude inversion can be useful for quantitative estimates of summary reservoir properties such as average porosity, net-to-gross, and others. This includes suprasalt and minibasin clastic reservoirs typically encountered in the Middle and Lower Tertiary plays in the deep-water Gulf of Mexico (several of which are also encountered subsalt), where depth to target can exceed 9000 m and highest frequencies at target are often rather low (20–25 Hz) (Bogan et al., 2003, Vernik et al., 2002).
Feasibility of epicardial adipose tissue quantification in non-ECG-gated low-radiation-dose CT: comparison with prospectively ECG-gated cardiac CT
Authors: Simon-Yarza Isabel , Viteri-Ramírez Guillermo , Saiz-Mendiguren Ramón , Slon-Roblero Pedro J , Paramo María , Bastarrika Gorka 
Published: May 2012

Background Epicardial adipose tissue (EAT) is an important indicator of cardiovascular risk. This parameter is generally assessed on ECG-gated computed tomography (CT) images. Purpose To evaluate feasibility and reliability of EAT quantification on non-gated thoracic low-radiation-dose CT examinations with respect to prospectively ECG-gated cardiac CT acquisition. Material and Methods Sixty consecutive asymptomatic smokers (47 men; mean age 64 ± 9.8 years) underwent low-dose CT of the chest and prospectively ECG-gated cardiac CT acquisitions (64-slice dual-source CT). The two examinations were reconstructed with the same range, field of view, slice thickness, and convolution algorithm. Two independent observers blindly quantified EAT volume using commercially available software. Data were compared with paired sample Student t-test, concordance correlation coefficients (CCC), and Bland-Altman plots. Results No statistically significant difference was observed for EAT volume quantification with low-dose-CT (141.7 ± 58.3 mL) with respect to ECG-gated CT (142.7 ± 57.9 mL). Estimation of CCC showed almost perfect concordance between the two techniques for EAT-volume assessment (CCC, 0.99; mean difference, 0.98 ± 5.1 mL). Inter-observer agreement for EAT volume estimation was CCC: 0.96 for low-dose-CT examinations and 0.95 for ECG-gated CT. Conclusion Non-gated low-dose CT allows quantifying EAT with almost the same concordance and reliability as using dedicated prospectively ECG-gated cardiac CT acquisition protocols.
Digital breast tomosynthesis (DBT): initial experience in a clinical setting
Authors: Skaane Per , Gullien Randi , Bjørndal Hilde , Eben Ellen B. , Ekseth Ulrika , Haakenaasen Unni , Jahr Gunnar , Jebsen Ingvild Næss , Krager Mona 
Published: May 2012

Background Digital breast tomosynthesis (DBT) is a promising new technology. Some experimental clinical studies have shown positive results, but the future role and indications of this new technique, whether in a screening or clinical setting, need to be evaluated. Purpose To compare digital mammography and DBT in a side-by-side feature analysis for cancer conspicuity, and to assess whether there is a potential additional value of DBT to standard state-of-the-art conventional imaging work-up with respect to detection of additional malignancies. Material and Methods The study had ethics committee approval. A total of 129 women underwent 2D digital mammography including supplementary cone-down and magnification views and breast ultrasonography if indicated, as well as digital breast tomosynthesis. The indication for conventional imaging in the clinical setting included a palpable lump in 30 (23%), abnormal mammographic screening findings in 54 (42%), and surveillance in 45 (35%) of the women. The women were examined according to present guidelines, including spot-magnification views, ultrasonography, and needle biopsies, if indicated. The DBT examinations were interpreted several weeks after the conventional imaging without knowledge of the conventional imaging findings. In a later session, three radiologists performed a side-by-side feature analysis for cancer conspicuity in a sample of 50 cases. Results State-of-the-art conventional imaging resulted in needle biopsy of 45 breasts, of which 20 lesions were benign and a total of 25 cancers were diagnosed. The remaining 84 women were dismissed with a normal/definitely benign finding and without indication for needle biopsy. The subsequent DBT interpretation found suspicious findings in four of these 84 women, and these four women had to be called back for repeated work-up with knowledge of the tomosynthesis findings. These delayed work-ups resulted in two cancers (increasing the cancer detection by 8%) and two false-positive findings. The side-by-side feature analysis showed higher conspicuity scores for tomosynthesis compared to conventional 2D for cancers presenting as spiculated masses and distortions. Conclusion Tomosynthesis is a promising new technique. Our preliminary clinical experience shows that there is a potential for increasing the sensitivity using this new technique, especially for cancers manifesting as spiculated masses and distortions.
Reviews DVDs
Authors: Stamm Laura , Fajardo Sophie , Stromquist Amanda 
Published: May 2012

I Am Love (Io sono l’amore) (2009) Italy Director Luca Guadagnino Runtime 120 minutes
DVD USA, 2010
The Headless Woman (La mujer sin cabeza) (2008) Argentina Director Lucrecia Martel Runtime 87 minutes
DVD USA, 2009
Sakuran (2006) Japan Director Mika Ninagawa Runtime
111 minutes
DVD UK, 2010
The Role of Secondary Cytoreductive Surgery in Patients with Recurrent Epithelial Ovarian, Tubal, and Peritoneal Cancers: A Comparative Effectiveness Analysis
Authors: Chuang Chi-Mu , Chou Yiing-Jeng , Yen Ming-Shyen , Chao Kuan-Chong , Twu Nae-Fang , Wu Hua-Hsi , Wen Kuo-Chang , Chen Yi-Jen , Wang Peng-Hui , Lai Chung-Ru , Chou Pesus 
Published: May 2012

Abstract

Background.
All published reports concerning secondary cytoreductive surgery for relapsed ovarian cancer have essentially been observational studies. However, the validity of observational studies is usually threatened from confounding by indication. We sought to address this issue by using comparative effectiveness methods to adjust for confounding.

Methods.
Using a prospectively collected administrative health care database in a single institution, we identified 1,124 patients diagnosed with recurrent epithelial, tubal, and peritoneal cancers between 1990 and 2009. Effectiveness of secondary cytoreductive surgery using the conventional Cox proportional hazard model, propensity score, and instrumental variable were compared. Sensitivity analyses for residual confounding were explored using an array approach.

Results.
Secondary cytoreductive surgery prolonged overall survival with a hazard ratio (95% confidence interval) of 0.76 (range 0.66–0.87), using the Cox proportional hazard model. Propensity score methods produced comparable results: 0.75 (range 0.64–0.86) by nearest matching, 0.73 (0.65–0.82) by quintile stratification, 0.71 (0.65–0.77) by weighting, and 0.72 (0.63–0.83) by covariate adjustment. The instrumental variable method also produced a comparable estimate: 0.75 (range 0.65–0.86). Sensitivity analyses revealed that the true treatment effects may approach the null hypothesis if the association between unmeasured confounders and disease outcome is high.

Conclusions.
This comparative effectiveness study provides supportive evidence for previous reports that secondary cytoreductive surgery may increase overall survival for patients with recurrent epithelial, tubal, and peritoneal cancers.
Realities Concerning Cyclic Loading of Clay Below a Gravity Structure
Authors: Mizikos Jean-Pierre , Leroy Jean-Paul 
Published: May 2012

Abstract
The softest layer of the overconsolidated clay deposits below a North Sea gravity structure on FRIGG field is instrumented with, in particular, the non-disturbing installation of an original array of high resolution pressuremeter cells (0.05 cm3 and 0.1 kPa) called a "dyprometer". It is piloted in situ by an electrovalve that renders possible tests of effective soil strength under all kinds of static, cyclic and dynamic loadings. The results of dyprometer tests correlate with the results of the other triaxial cyclic tests on the same material and to the soil data of the foundation design.
Original and main results are :
– The sensitivity of the measurements has revealed the existence of a quasi-elastic soil response resulting from overconsolidation. Real storm loads stimulate only this behaviour and avoid clay fatigue. Consequently, the slab is overdimensioned. – The cyclic fatigue stress limit approximates the static creep limit. – In situ observations and in situ test results relates to triaxial cyclic testing simulating the actual in situ stress history and conditions.
VisGraB: A Benchmark for Vision-Based Grasping
Authors: Kootstra Gert , Popović Mila , Jørgensen Jimmy Alison , Kragic Danica , Petersen Henrik Gordon , Krüger Norbert 
Published: May 2012

AbstractWe present a database and a software tool, VisGraB, for benchmarking of methods for vision-based grasping of unknown objects with no prior object knowledge. The benchmark is a combined real-world and simulated experimental setup. Stereo images of real scenes containing several objects in different configurations are included in the database. The user needs to provide a method for grasp generation based on the real visual input. The grasps are then planned, executed, and evaluated by the provided grasp simulator where several grasp-quality measures are used for evaluation. This setup has the advantage that a large number of grasps can be executed and evaluated while dealing with dynamics and the noise and uncertainty present in the real world images. VisGraB enables a fair comparison among different grasping methods. The user furthermore does not need to deal with robot hardware, focusing on the vision methods instead. As a baseline, benchmark results of our grasp strategy are included.
DNA aptamer configuration affects the sensitivity and binding kinetics of thrombin
Authors: Poturnayová Alexandra , Šnejdárková Maja , Hianik Tibor 
Published: May 2012

DNA aptamer configuration affects the sensitivity and binding kinetics of thrombinThrombin is serine protease involved in the coagulation cascade, which converts soluble fibrinogen into insoluble strands of fibrin - a matrix of the blood clot formation. Development of the sensitive method of the thrombin detection in nanomolar level is important for clinical practice. In this work we applied acoustic thickness shear mode method (TSM) for study the binding of human thrombin depending on DNA aptamer configuration. We compared sensitivity of detection and binding kinetics of the thrombin to the conventional DNA aptamers and aptamer dimers immobilized at the surface of quartz crystal transducer. We have shown that aptasensors based on aptamer dimers more sensitively detect thrombin. The aptamer-thrombin complexes were also more stable as revealed from equilibrium dissociation constant,KD, that was 4 times lower for aptamer dimers in comparison with conventional aptamers. Determination of motional resistance,Rm, from acoustic impedance analysis allowed us to find important differences in physico-chemical properties of layers formed by conventional aptamers and aptamer dimers.
Les législatives de 2011 dans l'« archipel de la puissance » : prémices d'un pluralisme politique à la russe ?
Authors: Limonier Kévin 
Published: May 2012

Quelques mois après les « printemps arabes », les manifestations en Russie véhiculent des représentations fortes. Spectaculaires et inédites depuis l’arrivée au pouvoir de Vladimir Poutine, ces mobilisations n’en demeurent pas moins très minoritaires à l’échelle nationale, et permettent mal de saisir l’ampleur et la nature de la contestation dont fait aujourd’hui l’objet Russie unie. En revanche, plus vaste et plus significative a été la remise en cause par la classe moyenne provinciale de la suprématie électorale du parti au pouvoir lors des législatives. Dans un pays où le niveau de vie est en hausse depuis une dizaine d’années, l’analyse de certains des territoires où se concentre cet électorat contestataire pourrait apporter d’utiles enseignements sur l’évolution du système politique russe.
La forte croissance de Plataforma per Catalunya : À l'aube d'un nouveau national-populisme en Espagne ?
Authors: Guedioura Hassen 
Published: May 2012

L’Espagne ne figure plus parmi les rares pays européens à être épargnés par la vague nationale-populiste qui touche le continent depuis le début de ce millénaire. La Plataforma per Catalunya (PxC), nouveau parti d’extrême droite violemment xénophobe ou plus spécifiquement « morophobe », enregistre une forte dynamique de croissance dans un contexte marqué par l’arrivée massive de travailleurs immigrés (1,4 million en 2001, ils sont presque 6 millions en 2011 ; environ 12% de la population – INE) et une crise économique durable faisant de cet État celui où le taux de chômage est le plus élevé d’Europe (20,4% – Eurostat 2011). Ce surgissement soudain de l’extrême droite n’en reste pas moins paradoxal car on a longtemps cru que ce pays serait immunisé face à un phénomène qui a toujours été marginal depuis l’avènement de la démocratie. Aussi parce qu’il a lieu en Catalogne, région autonome qui se projette comme un espace d’immigration et d’intégration. La réussite relative de PxC est le fruit d’une stratégie de conquête territoriale s’appuyant sur un ancrage local fort et qui saura tirer parti de ce contexte nouveau. Mais elle est surtout le produit d’une savante et complexe alchimie idéologique conçue par son leader, Josep Anglada i Rius, qui va réussir à adapter le discours des nouvelles formations européennes dites « identitaires » à la singularité géopolitique espagnole et catalane.
L'extrême droite au Royaume-Uni : une réelle imprégnation idéologique dans l'espace politique et public au cours de la dernière décennie
Authors: Braouezec Kevin 
Published: May 2012

La dernière décennie a marqué un changement important dans la vie politique et dans les mentalités britanniques : les partis et courants extrêmes de droite ont effectué une vraie progression électorale et ont occupé une place notable dans l’espace politique britannique. Alors qu’historiquement la culture civique britannique faisait rempart contre la pensée extrémiste, les événements des années 2000 (attentats du 11 septembre 2005, attentats de Londres en 2005, crise financière) et l’émergence de formations politiques plutôt bien organisées comme le British National Party (BNP) et l’United Kingdom Party (UKIP) ont permis cette imprégnation idéologique et électorale de la pensée extrémiste anti-immigration et antieuropéenne au Royaume-Uni. Face à la montée de l’extrême droite en Europe et à la crise économqiue qui touche le continent, la société britannique qui vient de connaître ses plus fortes émeutes depuis trente ans est donc dans un moment important de son histoire.
Consumers’ values and attitudes and their relation to the consumption of pork products: a study from Q-PorkChains in Brazil
Authors: de Barcellos M.D. , Perin M.G. , Pérez-Cueto F.J.A , Saab M.S.M. , Grunert K.G. 
Published: May 2012

Abstract
Consumers’ attitudes and personal values were assessed, investigating if those constructs affect the consumption of pork products. Empirical data was collected through a survey performed with 482 consumers in Brazil, according to Q-PorkChains project definitions. Attitudes towards the environment and nature are quite positive, although ethnocentrism is also present. Industrial food production seems to be an accepted system, but consumers are showing that environmental sustainability must not be forgotten. Consumers with more ‘traditionalist’ values prefer fresh, whilst those with ‘adventurous’ values prefer processed pork products. The development of innovative pork products aiming to attend to these different groups represents interesting opportunities for the pork chain.
Cutting Edge: Slamf8 Is a Negative Regulator of Nox2 Activity in Macrophages
Authors: Wang Guoxing , Abadía-Molina Ana C. , Berger Scott B. , Romero Xavier , O’Keeffe Michael S. , Rojas-Barros Domingo I. , Aleman Marta , Liao Gongxian , Maganto-García Elena , Fresno Manuel , Wang Ninghai , Detre Cynthia , Terhorst Cox 
Published: May 2012

Abstract
Slamf8 (CD353) is a cell surface receptor that is expressed upon activation of macrophages (MΦs) by IFN-γ or bacteria. In this article, we report that a very high NADPH oxidase (Nox2) enzyme activity was found in Slamf8−/− MΦs in response to Escherichia coli or Staphylococcus aureus, as well as to PMA. The elevated Nox2 activity in Slamf8−/− MΦs was also demonstrated in E. coli or S. aureus phagosomes by using a pH indicator system and was further confirmed by a reduction in the enzyme activity after transfection of the receptor into Slamf8-deficient primary MΦs or RAW 264.7 cells. Upon exposure to bacteria or PMA, protein kinase C activity in Slamf8−/− MΦs is increased. This results in an enhanced phosphorylation of p40phox, one key component of the Nox2 enzyme complex, which, in turn, leads to greater Nox2 activity. Taken together, the data show that, in response to inflammation-associated stimuli, the inducible receptor Slamf8 negatively regulates inflammatory responses.
B Cell Receptor-ERK1/2 Signal Cancels PAX5-Dependent Repression of BLIMP1 through PAX5 Phosphorylation: A Mechanism of Antigen-Triggering Plasma Cell Differentiation
Authors: Yasuda Takahiko , Hayakawa Fumihiko , Kurahashi Shingo , Sugimoto Keiki , Minami Yosuke , Tomita Akihiro , Naoe Tomoki 
Published: May 2012

Abstract
Plasma cell differentiation is initiated by Ag stimulation of BCR. Until BCR stimulation, B lymphocyte-induced maturation protein 1 (BLIMP1), a master regulator of plasma cell differentiation, is suppressed by PAX5, which is a key transcriptional repressor for maintaining B cell identity. After BCR stimulation, upregulation of BLIMP1 and subsequent suppression of PAX5 by BLIMP1 are observed and thought to be the trigger of plasma cell differentiation; however, the trigger that derepresses BLIMP1 expression is yet to be revealed. In this study, we demonstrated PAX5 phosphorylation by ERK1/2, the main component of the BCR signal. Transcriptional repression on BLIMP1 promoter by PAX5 was canceled by PAX5 phosphorylation. BCR stimulation induced ERK1/2 activation, phosphorylation of endogenous PAX5, and upregulation of BLIMP1 mRNA expression in B cells. These phenomena were inhibited by MEK1 inhibitor or the phosphorylation-defective mutation of PAX5. These data imply that PAX5 phosphorylation by the BCR signal is the initial event in plasma cell differentiation.