bluuebunny/crossref_metadata_2025_split huggingface dataset:
Exploratory use of docetaxel loaded acid-prepared mesoporous spheres for the treatment of malignant melanoma
Authors: Kaiser Sameer , MacPherson Maximilian B , James Ted A , Emery Albert , Spiess Page , van der Vliet Albert , Landry Christopher C , Shukla Arti 
Published: January 2015

Abstract

Introduction
Five year survival for metastatic melanoma (MM) is very low at <10%. Therapeutic options have been limited secondary to systemic toxicity. As a result there has been a growing movement towards developing targeted drug delivery models. Prior research of this group has demonstrated the effectiveness of acid-prepared mesoporous spheres (APMS-TEG) in delivering chemotherapeutic agents at a lower effective dose than systemic administration. This study aims to assess the ability of the previously developed APMS-TEG particles to deliver therapeutic doses of docetaxel for the treatment of melanoma.

Methods

In vitro experiments were performed to assess docetaxel loading onto APMS-TEG particles and release kinetics. Toxicity experiments were performed using docetaxel and docetaxel loaded APMS-TEG. The effect on cell growth was assessed using the MelJuSo, UACC903, and WM1205 melanoma cell lines.

Results
Docetaxel demonstrated statistically significant dose dependent reduction in growth of melanoma cells. In all three cell lines, doses of 1 nM were sufficient to produce statistically significant reduction in cell growth. Scanning electron micrographs demonstrate increased uptake of APMS-TEG particles by melanoma cells in the first 24 hours, with the majority within the first 4 hours. Unloaded APMS particles had no effect on the melanoma cells, demonstrating that the particles themselves are not toxic. APMS-TEG particles had a peak release of drug within the first hour, with equilibration thereafter. The 5, 10, and 20 nM loaded particles all had statistically significant reduction in cell growth than the control groups.

Discussion
The high potency against melanoma cells makes docetaxel a suitable choice for loading into APMS-TEG particles. Docetaxel loaded APMS-TEG particles demonstrate significant activity against malignant melanoma and thus offer an innovative approach to the treatment of metastatic melanoma.
Low-dose hydrocortisone reduces norepinephrine duration in severe burn patients: a randomized clinical trial
Authors: Venet Fabienne , Plassais Jonathan , Textoris Julien , Cazalis Marie-Angélique , Pachot Alexandre , Bertin-Maghit Marc , Magnin Christophe , Rimmelé Thomas , Monneret Guillaume , Tissot Sylvie 
Published: January 2015

Abstract
Introduction
The aim of this study was to assess the effect of low-dose corticosteroid therapy in reducing shock duration after severe burn.

Methods
A placebo-controlled, double-blind, randomized clinical trial (RCT) was performed on two parallel groups in the burn intensive care unit (ICU). Patients were randomized to receive either low-dose corticosteroid therapy or placebo for seven days. A corticotropin test was performed at the time of randomization, before the administration of the treatment dose. Thirty-two severely burned patients with refractory shock (>0.5 μg/kg/min of norepinephrine) were prospectively included in the study.

Results
We included 12 patients in the hydrocortisone-treated group and 15 patients in the placebo group in the final analysis. Among these patients, 21 were nonresponders to the corticotropin test. Median norepinephrine treatment duration (primary objective) was significantly lower in the corticosteroid-treated versus the placebo group (57 hours versus 120 hours, P = 0.035). The number of patients without norepinephrine 72 hours after inclusion was significantly lower in the treated group (P = 0.003, log-rank test analysis). The total quantities of norepinephrine administered to patients were lower in the hydrocortisone-treated versus the placebo group (1,205 μg/kg (1,079 to 2,167) versus 1,971 μg/kg (1,535 to 3,893), P = 0.067). There was no difference in terms of ICU or hospital length of stay, sepsis incidence, cicatrization or mortality.

Conclusions
In this placebo-controlled, randomized, double-blind clinical trial, we show for the first time that the administration of low-dose hydrocortisone in burn patients with severe shock reduces vasopressor administration.

Trial registration
Clinicaltrial.gov NCT00149123. Registered 6 September 2005.
Causes and consequences of crossing-over evidenced via a high-resolution recombinational landscape of the honey bee
Authors: Liu Haoxuan , Zhang Xiaohui , Huang Ju , Chen Jian-Qun , Tian Dacheng , Hurst Laurence D , Yang Sihai 
Published: January 2015

Abstract
Background
Social hymenoptera, the honey bee (Apis mellifera) in particular, have ultra-high crossover rates and a large degree of intra-genomic variation in crossover rates. Aligned with haploid genomics of males, this makes them a potential model for examining the causes and consequences of crossing over. To address why social insects have such high crossing-over rates and the consequences of this, we constructed a high-resolution recombination atlas by sequencing 55 individuals from three colonies with an average marker density of 314 bp/marker.

Results
We find crossing over to be especially high in proximity to genes upregulated in worker brains, but see no evidence for a coupling with immune-related functioning. We detect only a low rate of non-crossover gene conversion, contrary to current evidence. This is in striking contrast to the ultrahigh crossing-over rate, almost double that previously estimated from lower resolution data. We robustly recover the predicted intragenomic correlations between crossing over and both population level diversity and GC content, which could be best explained as indirect and direct consequences of crossing over, respectively.

Conclusions
Our data are consistent with the view that diversification of worker behavior, but not immune function, is a driver of the high crossing-over rate in bees. While we see both high diversity and high GC content associated with high crossing-over rates, our estimate of the low non-crossover rate demonstrates that high non-crossover rates are not a necessary consequence of high recombination rates.
Predicting genome-wide DNA methylation using methylation marks, genomic position, and DNA regulatory elements
Authors: Zhang Weiwei , Spector Tim D , Deloukas Panos , Bell Jordana T , Engelhardt Barbara E 
Published: January 2015

Abstract
Background
Recent assays for individual-specific genome-wide DNA methylation profiles have enabled epigenome-wide association studies to identify specific CpG sites associated with a phenotype. Computational prediction of CpG site-specific methylation levels is critical to enable genome-wide analyses, but current approaches tackle average methylation within a locus and are often limited to specific genomic regions.

Results
We characterize genome-wide DNA methylation patterns, and show that correlation among CpG sites decays rapidly, making predictions solely based on neighboring sites challenging. We built a random forest classifier to predict methylation levels at CpG site resolution using features including neighboring CpG site methylation levels and genomic distance, co-localization with coding regions, CpG islands (CGIs), and regulatory elements from the ENCODE project. Our approach achieves 92% prediction accuracy of genome-wide methylation levels at single-CpG-site precision. The accuracy increases to 98% when restricted to CpG sites within CGIs and is robust across platform and cell-type heterogeneity. Our classifier outperforms other types of classifiers and identifies features that contribute to prediction accuracy: neighboring CpG site methylation, CGIs, co-localized DNase I hypersensitive sites, transcription factor binding sites, and histone modifications were found to be most predictive of methylation levels.

Conclusions
Our observations of DNA methylation patterns led us to develop a classifier to predict DNA methylation levels at CpG site resolution with high accuracy. Furthermore, our method identified genomic features that interact with DNA methylation, suggesting mechanisms involved in DNA methylation modification and regulation, and linking diverse epigenetic processes.
Exoproteome analysis of Clostridium cellulovorans in natural soft-biomass degradation
Authors: Esaka Kohei , Aburaya Shunsuke , Morisaka Hironobu , Kuroda Kouichi , Ueda Mitsuyoshi 
Published: January 2015

Abstract

Clostridium cellulovorans is an anaerobic, cellulolytic bacterium, capable of effectively degrading various types of soft biomass. Its excellent capacity for degradation results from optimization of the composition of the protein complex (cellulosome) and production of non-cellulosomal proteins according to the type of substrates. In this study, we performed a quantitative proteome analysis to determine changes in the extracellular proteins produced by C. cellulovorans for degradation of several types of natural soft biomass. C. cellulovorans was cultured in media containing bagasse, corn germ, rice straw (natural soft biomass), or cellobiose (control). Using an isobaric tag method and a liquid chromatograph equipped with a long monolithic silica capillary column/mass spectrometer, we identified 372 proteins in the culture supernatant. Of these, we focused on 77 saccharification-related proteins of both cellulosomal and non-cellulosomal origins. Statistical analysis showed that 18 of the proteins were specifically produced during degradation of types of natural soft biomass. Interestingly, the protein Clocel_3197 was found and commonly involved in the degradation of every natural soft biomass studied. This protein may perform functions, in addition to its known metabolic functions, that contribute to effective degradation of natural soft biomass.
Fungal strain matters: colony growth and bioactivity of the European medicinal polypores Fomes fomentarius, Fomitopsis pinicola and Piptoporus betulinus
Authors: Dresch Philipp , D´Aguanno Maria Nives , Rosam Katharina , Grienke Ulrike , Rollinger Judith Maria , Peintner Ursula 
Published: January 2015

Abstract
Polypores have been applied in traditional Chinese medicine up to the present day, and are becoming more and more popular worldwide. They show a wide range of bioactivities including anti-cancer, anti-inflammatory, antiviral and immuno-enhancing effects. Their secondary metabolites have been the focus of many studies, but the importance of fungal strain for bioactivity and metabolite production has not been investigated so far for these Basidiomycetes. Therefore, we screened several strains from three medicinal polypore species from traditional European medicine: Fomes fomentarius, Fomitopsis pinicola and Piptoporus betulinus. A total of 22 strains were compared concerning their growth rates, optimum growth temperatures, as well as antimicrobial and antifungal properties of ethanolic fruit body extracts. The morphological identification of strains was confirmed based on rDNA ITS phylogenetic analyses. Our results showed that species delimitation is critical due to the presence of several distinct lineages, e.g. within the Fomes fomentarius species complex. Fungal strains within one lineage showed distinct differences in optimum growth temperatures, in secondary metabolite production, and accordingly, in their bioactivities. In general, F. pinicola and P. betulinus extracts exerted distinct antibiotic activities against Bacillus subtilis and Staphylococcus aureus at minimum inhibitory concentrations (MIC) ranging from 31-125 μg mL−1; The antifungal activities of all three polypores against Aspergillus flavus, A. fumigatus, Absidia orchidis and Candida krusei were often strain-specific, ranging from 125-1000 μg mL−1. Our results highlight that a reliable species identification, followed by an extensive screening for a ‘best strain’ is an essential prerequisite for the proper identification of bioactive material.
Feasibility study of an alkaline-based chemical treatment for the purification of polyhydroxybutyrate produced by a mixed enriched culture
Authors: Jiang Yang , Mikova Gizela , Kleerebezem Robbert , van der Wielen Luuk AM , Cuellar Maria C 
Published: January 2015

Abstract
This study focused on investigating the feasibility of purifying polyhydroxybutyrate (PHB) from mixed culture biomass by alkaline-based chemical treatment. The PHB-containing biomass was enriched on acetate under non-sterile conditions. Alkaline treatment (0.2 M NaOH) together with surfactant SDS (0.2 w/v% SDS) could reach 99% purity, with more than 90% recovery. The lost PHB could be mostly attributed to PHB hydrolysis during the alkaline treatment. PHB hydrolysis could be moderated by increasing the crystallinity of the PHB granules, for example, by biomass pretreatment (e.g. freezing or lyophilization) or by effective cell lysis (e.g. adjusting alkali concentration). The suitability of the purified PHB by alkaline treatment for polymer applications was evaluated by molecular weight and thermal stability. A solvent based purification method was also performed for comparison purposes. As result, PHB produced by mixed enriched cultures was found suitable for thermoplastic applications when purified by the solvent method. While the alkaline method resulted in purity, recovery yield and molecular weight comparable to values reported in literature for PHB produced by pure cultures, it was found unsuitable for thermoplastic applications. Given the potential low cost and favorable environmental impact of this method, it is expected that PHB purified by alkaline method may be suitable for other non-thermal polymer applications, and as a platform chemical.
An iterative algorithm for fixed point problem and convex minimization problem with applications
Authors: Cai Gang , Shehu Yekini 
Published: January 2015

AbstractIn this paper we prove the strong convergence of an iterative sequence for finding a common element of the fixed points set of a strictly pseudocontractive mapping and the solution set of the constrained convex minimization problem for a convex and continuously Fréchet differentiable functional in a real Hilbert space. We apply our result to solving the split feasibility problem and the convexly constrained linear inverse problem involving the fixed point problem for a strictly pseudocontractive mapping in a real Hilbert space.
Bioavailability and bioaccumulation characterization of essential and heavy metals contents in R. acetosa, S. oleracea and U. dioica from copper polluted and referent areas
Authors: Balabanova Biljana , Stafilov Trajče , Bačeva Katerina 
Published: January 2015

AbstractBackgroundBioavailability of metals occurring in soil is the basic source of its accumulation in vegetables and herbs. The impact of soil pollution (due to urban and mining areas) on the food chain presents a challenge for many investigations. Availability of metals in a potentially polluted soil and their possible transfer and bioaccumulation in sorrel (Rumex acetosa), spinach (Spinacia oleracea) and common nettle (Urtica dioica), were examined.MethodsMicrowave digestion was applied for total digestion of the plant tissues, while on the soil samples open wet digestion with a mixture of acids was applied. Three extraction methods were implemented for the bioavailable metals in the soil. Atomic emission spectrometry with inductively coupled plasma was used for determination of the total contents of 21 elements.ResultsSignificant enrichments in agricultural soil for As, Pb and Zn (in urban area), Cd, Cu and Ni (in a copper mine area), compared with the respective values from European standards were detected. On the basis of three different extraction methods, higher availability was assumed for both lithogenic and anthropogenic elements. Translocation values >1 were obtained for As, Cd, Cu, Ni, Pb and Zn. Higher bioconcentrating value was obtained only for Cd, while the bioaccumulation values vary from 0.17 for Cd to 0.82 for Zn.ConclusionsThe potential availability of hazardous metals in urban and mining soils is examined using DTPA-TEA-CaCl2(urban) and HCl (Cu-mines areas). Our results suggested thatS. oleraceaandR. acetosahave a phytostabilization potential for Cd, Cu, Ni and Pb, whileU. dioicaonly for Cu.R. acetosahas a potential for phytoextraction of Cd in urban and copper polluted areas.
X-ray tomography of a soil block: a useful tool for the restoration of archaeological finds
Authors: Re Alessandro , Corsi Jacopo , Demmelbauer Marco , Martini Margherita , Mila Giorgia , Ricci Chiara 
Published: January 2015

Abstract

Introduction
X-ray imaging is a very powerful tool which can be exploited in several fields. In the last few years, its use in archaeology has grown consistently. One of the most recent and interesting applications of computed X-ray tomography (CT) is the analysis of soil blocks, coming from excavations, in order to seek for finds of different kinds and materials possibly contained therein. For this purpose, both medical and industrial CT scanners have been employed. In this paper, the application of a CT instrument specifically designed and developed for the analysis of Cultural Heritage materials is presented. We analysed a soil block extracted from a necropolis in the Italian region of Abruzzo and probably dating back to the VI-IV century B.C., which was found to contain a bronze belt.

Results
Thanks to the versatility of the CT equipment we designed, a complete scan has been obtained in less than four hours and has delivered extremely useful information in a completely non-invasive way. The CT dataset and images allowed a virtual extraction of the find to be performed before the actual stratigraphic recovery that, in this case, was simplified thanks to the merging of the archaeological evidences and with information coming from scientific analyses. The information provided by the tomography consisted in: the distribution, shape and dimensions of fragments composing the artefact; indications about its general conditions; the recognition of repairs done in the past and the presence of different materials (although not precisely identified).

Conclusions
The use of CT has great potential for the work of both archaeologists and restorers. The indirect extraction of an artefact from an archaeological excavation, which entailed moving a soil block to the laboratory, allowed one to reconstruct almost all its parts and to collect information about materials. CT analysis has been particularly useful for determining both its conditions and its repairs before the actual recovery, thereby facilitating the restoration process.
The recovery and conservation of an historical piece like the one presented here can help archaeological and conservation studies, enrich a museum collection and contribute to the dissemination of acquired cultural information.
Guanaco abundance and monitoring in Southern Patagonia: distance sampling reveals substantially greater numbers than previously reported
Authors: Travaini Alejandro , Zapata Sonia C , Bustamante Javier , Pedrana Julieta , Zanón Juan I , Rodríguez Alejandro 
Published: January 2015

AbstractBackgroundGuanacos (Lama guanicoe) are thought to have declined in Patagonia mainly as a result of hunting and sheep ranching. Currently accepted estimates of total population size are extrapolated from densities obtained through strip transects in local studies. We used road surveys (8,141 km) and distance sampling to estimate guanaco density and population size over major environmental gradients of Santa Cruz, a large region in southern Patagonia. We also calculated the survey effort required to detect population trends in Santa Cruz.ResultsWe found considerable spatial variation in density (1.1 to 7.4 ind/km2), with a mean value of 4.8 ind/km2, which is more than twice the mean value guessed for central and northern Patagonia. Consequently, guanaco numbers in Santa Cruz were estimated at 1.1 million individuals (95% CI 0.7 to 1.6), which almost doubles current estimates of guanaco population size in South America. High guanaco abundance was found in arid lands, overgrazed and unable to support profitable sheep stocks. Detecting a 50% change in guanaco population size over a 10-year period requires substantial monitoring effort: the annual survey of between 40 and 80 30-km transects, which becomes up to 120 transects if trends are to be detected over 5 years.ConclusionsRegional patterns in guanaco density can only be detected through large-scale surveys. Coupling these surveys with distance sampling techniques produce robust estimates of density and its variation. Figures so obtained improve currently available estimates of guanaco population size across its geographic range, which seem to be extrapolated from strip counts over small areas. In arid lands degraded by sheep overgrazing, sustainable use of guanaco populations would help harmonize guanaco conservation, socio-economic progress of rural areas, and eventually the restoration of shrub-steppes.
Comparative evaluation of biphasic calcium phosphate and biphasic calcium phosphate collagen composite on osteoconductive potency in rabbit calvarial defect
Authors: Lee Eun-Ung , Kim Dong-Ju , Lim Hyun-Chang , Lee Jung-Seok , Jung Ui-Won , Choi Seong-Ho 
Published: January 2015

Abstract

Background
The aim of this study was to determine the osteoconductivity of biphasic calcium phosphate collagen composite (BCPC) in rabbit calvarial defect model by comparing with biphasic calcium phosphate (BCP). Four 8 mm diameter bicortical calvarial defects were made in ten rabbits. Each of the defects was randomly assigned and filled with 1) collagen sponge, 2) BCP, 3) BCPC, and 4) nothing as control. The animals were sacrificed at either 2 weeks (n = 5) or 8 weeks (n = 5) healing period.

Results
All groups showed wedge shaped new bone formation limited to the area of the defect margin at both healing periods. The amounts of new bone and defect closure were similar among all groups. In the control and collagen sponge group, the center of the defect was depressed by surrounding tissues. In contrast, in BCP and BCPC group, the center of the defect did not depressed and the grafted materials maintained the space. And the augmented area was significantly higher in BCP and BCPC group compared to the control and collagen sponge group at both healing periods (p < 0.05).

Conclusions
The BCPC and BCP demonstrated proper space maintaining capacity and osteoconductive property, suggesting BCPC can be efficiently utilized in various clinical situations.