bluuebunny/crossref_metadata_2025_split huggingface dataset:
Deux traductions en moyen francais des fables de Vincent de Beauvais
Authors: Cifarelli Paola 
Published: February 2014

Dans ce travail, nous analysons deux des quatre versions vulgaires des vingt-neuf fables de Vincent de Beauvais, à savoir celle de Jean de Vignay qui traduisit leSpeculum Historialeautour de 1330 et la version anonyme insérée d’istoire de Philippe VI, ou Chroniques abregées, compilation fondée pour environ 85% sur le texte de Vincent de Beauvais. Nous examinons d’abord les variantes relatives aux fables dans les deux manuscrits les plus anciens duMiroir Historialde Jean de Vignay pour vérifier l’ypothèse formulée récemment selon laquelle le traducteur aurait soumis son texte à un travail minutieux de révision. Ensuite, nous mettons en parallèle la version de Jean de Vignay et celle du Manuel d’istoire pour évaluer les conséquences de deux approches méthodologiques différentes de la traduction du texte. Finalement, nous
prenons en considération le ms. BNF, f. fr. 15.219, où la version des fables du Manuel d’istoire semblait figurer isolée du reste du texte, pour ajouter quelques remarques et rectifier quelques données antérieures.
A conjecture of Gray and the 𝑝-th power map on Ω²𝑆^{2𝑛𝑝+1}
Authors: Richter William 
Published: February 2014

For

p
≥
2

p\ge 2

, the

p
p

-th power map

[
p
]

[p]

on

Ω
2

S

2
n
p
+
1

\Omega ^2 S^{2np+1}

is homotopic to a composite

Ω
2

S

2
n
p
+
1

⟶

ϕ
n

S

2
n
p
−
1

⟶

E
2

Ω
2

S

2
n
p
+
1

,

\Omega ^2 S^{2np+1} \overset {\phi _n}{\longrightarrow } S^{2np-1} \overset {E^2}{\longrightarrow } \Omega ^2 S^{2np+1},

where the fiber of

ϕ
n

\phi _n

is

B

W
n

BW_n

.
Quirky patterns in time-series of estimates of recruitment could be artefacts
Authors: Dickey-Collas M. , Hintzen N. T. , Nash R. D. M. , Schön P-J. , Payne M. R. 
Published: February 2014

Abstract
The accessibility of databases of global or regional stock assessment outputs is leading to an increase in meta-analysis of the dynamics of fish stocks. In most of these analyses, each of the time-series is generally assumed to be directly comparable. However, the approach to stock assessment employed, and the associated modelling assumptions, can have an important influence on the characteristics of each time-series. We explore this idea by investigating recruitment time-series with three different recruitment parameterizations: a stock–recruitment model, a random-walk time-series model, and non-parametric “free” estimation of recruitment. We show that the recruitment time-series is sensitive to model assumptions and this can impact reference points in management, the perception of variability in recruitment and thus undermine meta-analyses. The assumption of the direct comparability of recruitment time-series in databases is therefore not consistent across or within species and stocks. Caution is therefore required as perhaps the characteristics of the time-series of stock dynamics may be determined by the model used to generate them, rather than underlying ecological phenomena. This is especially true when information about cohort abundance is noisy or lacking.
High-circulating Tie2 Is Associated With Pathologic Complete Response to Chemotherapy and Antiangiogenic Therapy in Breast Cancer
Authors: Makhoul Issam , Griffin Robert J. , Siegel Eric , Lee Jeannette , Dhakal Ishwori , Raj Vinay , Jamshidi-Parsian Azemat , Klimberg Suzanne , Hutchins Laura F. , Kadlubar Susan 
Published: February 2014

Introduction:
Vascular endothelial growth factor (VEGF) is a central mediator of angiogenesis in breast cancer. Research in antiangiogenic cancer treatment has been marked by the development of the monoclonal antibody bevacizumab, which targets VEGF in many solid tumors. As patients do not equally benefit from bevacizumab, it has become necessary to define the profile of patients who will benefit from the drug.

Materials and Methods:
We have conducted a prospective phase II study in 39 patients using bevacizumab in breast cancer in the neoadjuvant setting, and found improved pathologic complete response (pCR) when bevacizumab was added to chemotherapy in patients with hormone receptor negative and invasive ductal carcinoma. Blood samples were collected at baseline and serially while patients were on treatment. Circulating angiogenesis-related proteins angiopoietin (ANG)1, ANG2, basic fibroblast growth factor, IL-1a, matrix metalloproteinase 9, platelet derived growth factor - BB, platelet endothelial cell adhesion molecule -1, Tie2, VEGF, and vascular endothelial growth factor receptor 2 were measured at baseline and during treatment. This correlative study was conducted to identify specific serum angiogenic factor profiles that might be associated with pCR in the neoadjuvant setting in breast cancer patients receiving bevacizumab and chemotherapy.

Results:
Elevated baseline serum Tie2 and basic fibroblast growth factor were associated with pCR in response to this combination. Changes in serum levels of these proteins were seen during treatment but were not significantly different between the pCR and non-pCR groups.

Conclusions:
Baseline-circulating Tie2 levels may help distinguish patients who will have pCR from those who will not and may form the basis for future development of antiangiogenic therapy in breast cancer. Larger studies are needed to validate these findings. ClinicalTrials.gov Identifier: NCT00203502.
The Impact of Positive Margins on Outcome Among Patients With Gastric Cancer Treated With Radiation
Authors: Schoenfeld Jonathan D. , Wo Jennifer Y. , Mamon Harvey J. , Kwak Eunice L. , Mullen John T. , Enzinger Peter Z. , Blaskowsky Lawrence S. , Ryan David P. , Hong Theodore S. 
Published: February 2014

Objectives:
Positive surgical margins have been associated with worse outcomes in gastric cancer patients. We evaluated the impact of positive margins in a modern cohort treated with radiotherapy.

Methods:
We performed a multi-institutional retrospective analysis of patients treated from 1998 through 2010. All underwent definitive surgery and were followed up for recurrence and survival. We assessed associations with positive margins using the log-rank tests and Cox proportional hazard models.

Results:
We identified 91 patients with a median follow-up of 42 months. Seven received radiation before surgery; the remainder were treated postoperatively. Epirubicin-based chemotherapy was given to 8 patients perioperatively and 25 postoperatively. Nineteen had positive margins (21%), including 25% of patients who received chemotherapy perioperatively. All patients who received neoadjuvant radiotherapy had negative margins. There were 41 recurrences and 44 deaths. Positive margins were associated with increased recurrence risk after adjusting for other factors (hazard ratio=2.8, P=0.01). In addition, median survival with positive margins was 31 months as compared with 77 months after complete resection (P=0.13).

Conclusions:
Positive margins were associated with recurrence despite aggressive multimodality therapy including radiotherapy and the selective use of chemotherapy. Thus, additional consideration is warranted for strategies such as neoadjuvant chemoradiation intended to facilitate complete resection.
Meningioma in Breast Cancer Patients
Authors: Milano Michael T. , Grossman Craig E. 
Published: February 2014

Objectives:
Although an association between meningioma and breast cancer (BC) has been postulated, clear mechanisms remain obscure. By conducting population-based analyses in women with both BC and meningioma, hypothesis-generating causal links were pursued.

Methods:
Using the US SEER 18 registry (2004 to 2009), clinicopathologic and demographic characteristics from cohorts of women with only BC (n=279,821) or meningioma (n=19,570) diagnoses were compared with 412 women with both diagnoses (BC-meningioma).

Results:
BC diagnosis preceded meningioma by >2 months in 48% of women; 20% had synchronous (within 2 mo) disease. Median meningioma size was 1.9 and 2.4 cm in the BC-meningioma and meningioma cohorts, respectively (P=0.0009). Among BC-meningioma patients, meningioma size was similar whether diagnosed >2 months prior, synchronously, or >2 months after BC. Meningioma was pathologically confirmed in 38% of BC-meningioma and 51% of meningioma patients. Distribution of BC histologies was comparable in patients with and without meningioma, with ductal type predominating (80% in BC-meningioma, 83% in BC). Although hormone receptor status of invasive BC was not significantly different between BC-meningioma and BC groups, the BC-meningioma cohort had fewer women with ER+/PR+ in situ disease (P=0.006). BC stage among women with meningioma was more advanced versus women with BC only.

Conclusions:
Women with BC and meningioma have smaller-sized meningiomas and more advanced BCs compared with women having only 1 diagnosis. As there was no temporal relationship between size and latency between tumor diagnoses, the disparity in meningioma size between BC-meningioma and meningioma cohorts may have BC-associated biological components that warrant further study.
Phase I Study of Pazopanib and Ixabepilone in Patients With Solid Tumors
Authors: Ganesan Chitra , Obulareddy Sri J. , Fischer James H. , Antonysamy Mary A. , Jha Gautam , Bliss Robin L. , Dudek Arkadiusz Z. 
Published: February 2014

Objectives:
Pazopanib is a tyrosine kinase inhibitor predominantly acting on tumor endothelium, and ixabepilone is a semisynthetic analog of epothilone B that promotes microtubule stabilization inducing tumor and tumor endothelial cell apoptosis. The purpose of this study was to determine the optimal tolerated dose (OTD) of the combination of pazopanib and ixabepilone for the treatment of metastatic previously treated solid tumors.

Methods:
Dose escalation started at 32 mg/m2 of ixabepilone and increased to 40 mg/m2. Pazopanib was administered initially at 400 mg and escalated at 200 mg increments up to 800 mg. Pharmacokinetic analysis assessed effect of ixabepilone on pazopanib metabolism. Correlative studies evaluated changes in angiogenic cytokines.

Results:
Thirty-one patients (20 male and 11 female; median age, 58 y) with ECOG PS of 0 or 1 were enrolled. Three patients had dose-limiting toxicities (fatigue and neutropenia) at dose level 2 (ixabepilone 40 mg/m2 and pazopanib 400 mg), and therefore the ixabepilone dose was decreased (32 mg/m2) before escalating pazopanib to levels 3 and 4. One patient had a dose-limiting toxicity (thrombocytopenia) at dose level 4 (ixabepilone 32 mg/m2 and pazopanib 800 mg). Dose level 3 was determined to be the OTD (pazopanib 600 mg and ixabepilone 32 mg/m2). The most common toxicities were cytopenias. A significant decrease in the level of sE-selectin was associated with improvement in progression free survival.

Conclusions:
The OTD for combination of pazopanib and ixabepilone was established. There was no impact of ixabepilone on pazopanib pharmacokinetics. The relationship between sE-selectin and progression free survival warrants further investigation.
Down-Regulation of Plasma Intrinsic Protein1 Aquaporin in Poplar Trees Is Detrimental to Recovery from Embolism
Authors: Secchi Francesca , Zwieniecki Maciej A. 
Published: February 2014

AbstractDuring their lifecycles, trees encounter multiple events of water stress that often result in embolism formation and temporal decreases in xylem transport capacity. The restoration of xylem transport capacity requires changes in cell metabolic activity and gene expression. Specifically, in poplar (Populus spp.), the formation of xylem embolisms leads to a clear up-regulation of plasma membrane protein1 (PIP1) aquaporin genes. To determine their role in poplar response to water stress, transgenic Populus tremula × Populus alba plants characterized by the strong down-regulation of multiple isoforms belonging to the PIP1 subfamily were used. Transgenic lines showed that they are more vulnerable to embolism, with 50% percent loss of conductance occurring 0.3 MPa earlier than in wild-type plants, and that they also have a reduced capacity to restore xylem conductance during recovery. Transgenic plants also show symptoms of a reduced capacity to control percent loss of conductance through stomatal conductance in response to drought, because they have a much narrower vulnerability safety margin. Finally, a delay in stomatal conductance recovery during the period of stress relief was observed. The presented results suggest that PIP1 genes are involved in the maintenance of xylem transport system capacity, in the promotion of recovery from stress, and in contribution to a plant’s control of stomatal conductance under water stress.
Fidelity and repeatability of wave fields reconstructed from multicomponent streamer data
Authors: Eggenberger Kurt , Christie Philip , Vassallo Massimiliano , Özbek Ali , Muyzert Everhard , van Manen Dirk‐Jan , Kragh Ed 
Published: February 2014

ABSTRACTWave field reconstruction – the estimation of a three‐dimensional (3D) wave field representing upgoing, downgoing or the combined total pressure at an arbitrary point within a marine streamer array – is enabled by simultaneous measurements of the crossline and vertical components of particle acceleration in addition to pressure in a multicomponent marine streamer. We examine a repeated sail line of North Sea data acquired by a prototype multicomponent towed‐streamer array for both wave field reconstruction fidelity (or accuracy) and reconstruction repeatability. Data from six cables, finely sampled in‐line but spaced at 75 m crossline, are reconstructed and placed on a rectangular data grid uniformly spaced at 6.25 m in‐line and crossline. Benchmarks are generated using recorded pressure data and compared with wave fields reconstructed from pressure alone, and from combinations of pressure, crossline acceleration and vertical acceleration. We find that reconstruction using pressure and both crossline and vertical acceleration has excellent fidelity, recapturing highly aliased diffractions that are lost by interpolation of pressure‐only data. We model wave field reconstruction error as a linear function of distance from the nearest physical sensor and find, for this data set with some mismatched shot positions, that the reconstructed wave field error sensitivity to sensor mispositioning is one‐third that of the recorded wave field sensitivity. Multicomponent reconstruction is also more repeatable, outperforming single‐component reconstruction in which wave field mismatch correlates with geometry mismatch. We find that adequate repeatability may mask poor reconstruction fidelity and that aliased reconstructions will repeat if the survey geometry repeats. Although the multicomponent 3D data have only 500 m in‐line aperture, limiting the attenuation of non‐repeating multiples, the level of repeatability achieved is extremely encouraging compared to full‐aperture, pressure‐only, time‐lapse data sets at an equivalent stage of processing.
Adaptation of Bacillus subtilis carbon core metabolism to simultaneous nutrient limitation and osmotic challenge: a multi‐omics perspective
Authors: Kohlstedt Michael , Sappa Praveen K. , Meyer Hanna , Maaß Sandra , Zaprasis Adrienne , Hoffmann Tamara , Becker Judith , Steil Leif , Hecker Michael , van Dijl Jan Maarten , Lalk Michael , Mäder Ulrike , Stülke Jörg , Bremer Erhard , Völker Uwe , Wittmann Christoph 
Published: February 2014

SummaryThe Gram‐positive bacterium Bacillus subtilis encounters nutrient limitations and osmotic stress in its natural soil ecosystem. To ensure survival and sustain growth, highly integrated adaptive responses are required. Here, we investigated the system‐wide response of B. subtilis to different, simultaneously imposed stresses. To address the anticipated complexity of the cellular response networks, we combined chemostat experiments under conditions of carbon limitation, salt stress and osmoprotection with multi‐omics analyses of the transcriptome, proteome, metabolome and fluxome. Surprisingly, the flux through central carbon and energy metabolism is very robust under all conditions studied. The key to achieve this robustness is the adjustment of the biocatalytic machinery to compensate for solvent‐induced impairment of enzymatic activities during osmotic stress. Specifically, increased production of several enzymes of central carbon metabolism compensates for their reduced activity in the presence of high salt. A major response of the cell during osmotic stress is the production of the compatible solute proline. This is achieved through the concerted adjustment of multiple reactions around the 2‐oxoglutarate node, which drives metabolism towards the proline precursor glutamate. The fine‐tuning of the transcriptional and metabolic networks involves functional modules that overarch the individual pathways.
Parallel tagged amplicon sequencing of transcriptome‐based genetic markers for Triturus newts with the Ion Torrent next‐generation sequencing platform
Authors: Wielstra B. , Duijm E. , Lagler P. , Lammers Y. , Meilink W. R. M. , Ziermann J. M. , Arntzen J. W. 
Published: February 2014

AbstractNext‐generation sequencing is a fast and cost‐effective way to obtain sequence data for nonmodel organisms for many markers and for many individuals. We describe a protocol through which we obtain orthologous markers for the crested newts (Amphibia: Salamandridae: Triturus), suitable for analysis of interspecific hybridization. We use transcriptome data of a single Triturus species and design 96 primer pairs that amplify c. 180 bp fragments positioned in 3‐prime untranslated regions. Next, these markers are tested with uniplex PCR for a set of species spanning the taxonomical width of the genus Triturus. The 52 markers that consistently show a single band of expected length at gel electrophoreses for all tested crested newt species are then amplified in five multiplex PCRs (with a plexity of ten or eleven) for 132 individual newts: a set of 84 representing the seven (candidate) species and a set of 48 from a presumed hybrid population. After pooling multiplexes per individual, unique tags are ligated to link amplicons to individuals. Subsequently, individuals are pooled equimolar and sequenced on the Ion Torrent next‐generation sequencing platform. A bioinformatics pipeline identifies the alleles and recodes these to a genotypic format. Next, we test the utility of our markers. baps allocates the 84 crested newt individuals representing (candidate) species to their expected (candidate) species, confirming the markers are suitable for species delineation. newhybrids, a hybrid index and hiest confirm the 48 individuals from the presumed hybrid population to be genetically admixed, illustrating the potential of the markers to identify interspecific hybridization. We expect the set of markers we designed to provide a high resolving power for analysis of hybridization in Triturus.
The effects of read length, quality and quantity on microsatellite discovery and primer development: from Illumina to PacBio
Authors: Wei Na , Bemmels Jordan B. , Dick Christopher W. 
Published: February 2014

AbstractThe advent of next‐generation sequencing (NGS) technologies has transformed the way microsatellites are isolated for ecological and evolutionary investigations. Recent attempts to employ NGS for microsatellite discovery have used the 454, Illumina, and Ion Torrent platforms, but other methods including single‐molecule real‐time DNA sequencing (Pacific Biosciences or PacBio) remain viable alternatives. We outline a workflow from sequence quality control to microsatellite marker validation in three plant species using PacBio circular consensus sequencing (CCS). We then evaluate the performance of PacBio CCS in comparison with other NGS platforms for microsatellite isolation, through simulations that focus on variations in read length, read quantity and sequencing error rate. Although quality control of CCS reads reduced microsatellite yield by around 50%, hundreds of microsatellite loci that are expected to have improved conversion efficiency to functional markers were retrieved for each species. The simulations quantitatively validate the advantages of long reads and emphasize the detrimental effects of sequencing errors on NGS‐enabled microsatellite development. In view of the continuing improvement in read length on NGS platforms, sequence quality and the corresponding strategies of quality control will become the primary factors to consider for effective microsatellite isolation. Among current options, PacBio CCS may be optimal for rapid, small‐scale microsatellite development due to its flexibility in scaling sequencing effort, while platforms such as Illumina MiSeq will provide cost‐efficient solutions for multispecies microsatellite projects.
Decreased maspin combined with elevated vascular endothelial growth factor C is associated with poor prognosis in non‐small cell lung cancer
Authors: Wang Xing , Wang Yang , Li Shaolei , Dong Bin , Zheng Qingfeng , Yan Shi , Ma Yuanyuan , Zhang Jianzhi , Fang Jian , Wu Nan , Wu Huijuan , Yang Yue 
Published: February 2014

AbstractBackgroundThis study aimed to investigate the clinical significance of the combination of maspin and vascular endothelial growth factor (VEGF)‐C expression in the prognosis of non‐small cell lung cancer (NSCLC).MethodsImmunohistochemistry was performed to assay the expression of maspin and VEGF‐C in primary tumor tissues, metastatic, and non‐metastatic lymph nodes in 98 NSCLC patients. Survival analysis was determined by Kaplan‐Meier curves.ResultsThe positive expression rate of maspin was 26.5% (26/98) in NSCLC primary tumor tissues, significantly associated with histological type (P = 0.005) and the absence of nodal metastasis (P < 0.001). The expression of maspin in primary tumor tissues was stronger than metastatic lymph nodes of the N1 group (P = 0.048), while the metastatic lymph nodes of the N1 group had a stronger maspin expression than the N2 group (P = 0.008). In survival analysis, a positive expression of maspin of the N1 lymph node was also found to be an independent positive prognostic factor in overall survival (P = 0.003). We also found that decreased maspin combined with elevated VEGF‐C is associated with a poor prognosis for disease‐free survival (P = 0.019).ConclusionOur results suggest that positive expression of maspin might significantly inhibit nodal metastasis in NSCLC. Decreased maspin combined with elevated VEGF‐C might be associated with a poor prognosis in NSCLC.