Analysis of the HLA class I associated peptide repertoire in a hepatocellular carcinoma cell line reveals tumor-specific peptides as putative targets for immunotherapy

HLA class I molecules present peptides on the cell surface to CD8(+) T cells. The repertoire of peptides that associate to class I molecules represents the cellular proteome. Therefore, cells expressing different proteomes could generate different class I-associated peptide repertoires. A large number of peptides have been sequenced from HLA class I alleles, mostly from lymphoid cells. On the other hand, T cell immunotherapy is a goal in the fight against cancer, but the identification of T cell epitopes is a laborious task. Proteomic techniques allow the definition of putative T cell epitopes by the identification of HLA natural ligands in tumor cells. In this study, we have compared the HLA class I-associated peptide repertoire from the hepatocellular carcinoma (HCC) cell line SK-Hep-1 with that previously described from lymphoid cells. The analysis of the peptide pool confirmed that, as expected, the peptides from SK-Hep-1 derive from proteins localized in the same compartments as in lymphoid cells. Within this pool, we have identified 12 HLA class I peptides derived from HCC-related proteins. This confirms that tumor cell lines could be a good source of tumor associated antigens to be used, together with MS, to define putative epitopes for cytotoxic T cells from cancer patients.     

Hydatid cyst of the interventricular septum in a 3.5-year-old child

An asymptomatic cardiac cyst located in the interventricular septum was diagnosed in a 3.5-year-old child by echocardiographic findings. Surgical ablation was done and histopathologic analysis confirmed a hydatid cyst. The patient was discharged without symptoms.     

A time-series analysis of mortality and air temperature in Greater Beirut

The literature on the association between health and weather in the temperate to semi-arid cities of the Eastern Mediterranean is scarce. The quantification of the relationship between temperature and daily mortality can be useful for developing policy interventions such as heat-warning systems. A time-series analysis of total daily mortality and weather data for the city of Beirut was carried out. The study covered the period between 1997 and 1999. Poisson auto-regressive models were constructed, with mean daily temperature and mean daily humidity as explanatory variables. Delayed effects, up to 2 weeks, were accounted for. The regression models were used next to assess the effect of an average increase in temperature on yearly mortality. The association between temperature and mortality was found to be significant. A relatively high minimum-mortality temperature (TMM) of 27.5 degrees C was calculated. A 1 degrees C rise in temperature yielded a 12.3% increase (95% confidence interval: 5.7-19.4%) and 2.9% decrease (95% confidence interval: 2-3.7%) in mortality, above and below TMM, respectively. Lag temperature variables were found to be significant below TMM but not above it. Where the temperature change was less than 0.5 degrees C, annual above-TMM losses were offset by below-TMM gains, within a 95% confidence interval. TMM for Beirut fell within the range usually associated with warm climates. However, the mild below-TMM and steep above-TMM slopes were more typical of cities with temperate to cold climates. Our findings suggest that heat-related mortality at moderately high temperatures can be a significant public health issue in countries with warm climates. Moreover, at the projected climate change over the next 50 years, heat-related losses are unlikely to be offset by cold-related gains.     

First experiences of teaching quantum computing

The Journal of Supercomputing - Quantum computing is a reality that presents challenges to computer engineering students and practitioners. It has been claimed that it is possible to effectively...     

Retrieval of textured images through the use of quantization and modal analysis

This paper proposes a new method for textured image retrieval, by the modal analysis of quantized spectral point patterns as the modal correspondence method of Shapiro and Brady, to match point sets by comparing the eigenvectors of a pairwise point proximity matrix taken from the power spectrum peaks. A variant of the Carcassoni, Ribeiro and Hancock method for performing recognition is taken into account. For choosing image features to represent an image, a quantization scheme is applied. This quantization scheme acts in the spectral space given by the Fourier transform of each image. Its goal is to find a small set which represents an image efficiently, where the most important features are presented. The proposed technique is invariant to rotation and is robust in the presence of noise and damaged images. The techniques here presented are compared, and the commonly used retrieval performance measurement—precision and recall—is used as evaluation of the query results.     

Prior detection of genetic algorithm significant parameters: Coupling factorial design technique to genetic algorithm

This work presents an extension of a previous proposed procedure [Costa, C.B.B., Wolf Maciel, M.R., Maciel Filho, R., 2005. Factorial design technique applied to genetic algorithm parameters in a batch cooling crystallization optimization. Computers and Chemical Engineering 29, 2229-2241] to be adopted as a prior analysis in optimization problems to be solved using genetic algorithm (GA). Chemical engineering problems are commonly highly non-linear and possess a large number of variables, sometimes with significant interactions among them. Such characteristics make the optimization problems really difficult to be solved by deterministic methods. GA is an increasing tool for solving this sort of problems. However, no systematic approach to establish the best set of GA parameters for any problem was found in the literature and a relatively easy to use and meaningful approach is proposed and proved to be of general application. The proposed approach consists of applying factorial design, a well-established statistical technique to identify the most meaningful information about the influences of factors on a specific problem, as a support tool to identify the GA parameters with significant effect on the optimization problem. This approach is very useful in conducting further optimization works, since it discharges GA parameters that are not statistically significant for the evolutionary search for the optimum, saving time and computation burden in evolutionary optimization studies.     

Intracardiac thrombus trapped in a patent foramen ovale

We describe a case of impending paradoxical embolism due to a thrombus trapped in a patent foramen ovale in a 22-year-old woman. Transthoracic and transesophageal echocardiography detected the thrombus. She was operated on and discharged asymptomatic.     

Quantitative electrospray LC-MS and LC-MS/MS in biomedicine

The use of electrospray LC-MS and LC-MS/MS for the quantitative determination of two low molecular weight (< 500 Da) organic compounds in human plasma (Lovastatin) and cell supernatants (Arachidonic acid) and medium molecular weight (> 2000 Da) endogenous peptides (Endothelins) in supernatants of human umbilical vein endothelial cell cultures is reported. These methods make use either of deuterium labelled or structurally similar molecules as internal standards for quantitation and one or more pre-purification steps previous the LC-MS analysis. Linear calibration curves and detection limits around 50 pg ml(-1) were obtained in all three cases.     

Habitat associations of a raptor community in a mosaic landscape of Central Spain under urban development

The effects of urban sprawl and the associated road network on patterns of land use by diurnal raptors were assessed in a extent mosaic landscape of Sierra de Guadarrama subjected to exurban development (Madrid province; Central Spain), within the buffer area of a planned national park. During three consecutive years, the sightings of raptors per 0.25 km² were analyzed to identify their habitat preferences according to several vegetation types, urban cover and length of paved roads. Species richness increased with the amount of deciduous forests of Pyrenean oak Quercus pyrenaica and parklands of Narrow-leaved Ash Fraxinus angustifolia in lowland areas, while it decreased with cover of urban/suburban areas. Analyzing the three most abundant species separately, urban development had a negative influence on the Common Buzzard Buteo buteo and the Black Kite Milvus migrans, although positively affected the Booted Eagle Hieraaetus pennatus, probably through an increase in the availability of its potential prey within urban areas. This study did not find a negative influence of the road network, either considering total species richness or the three most abundant species separately. The current levels of urban development diminished the suitability of the study area for the raptor community overall (though particular species can be favoured), notably when residential sprawls are established over ash parklands traditionally devoted to cattle grazing.     

“Laboratorio Q”, Seville: creative production of collective spaces before and after austerity

The creative city approach is going through a redefinition after the 2008 global financial crisis. In the specific case of South-European cities, in the context of austerity and cuts in public investment, creativity is becoming a strategy for achieving maximum social benefit and improvement of the built environment with minimum economic expenditure. This paper looks at this redefinition of creativity through the case study of Seville, in southern Spain. Through research methods that include video-recorded testimonies of the actors involved, mapping at the online platform “Laboratorio Q”, and public engagement activities, this paper explores how the civic society, professional, and public authorities have reinvented how to produce collective spaces. The paper concludes that bottom-up creative processes for producing collective spaces have become more visible since the 2008 crisis, when architects, planners, public authorities and policy-makers have been “learning” from them.