Identification of a biomarker panel for colorectal cancer diagnosis

Background Malignancies arising in the large bowel cause the second largest number of deaths from cancer in the Western World. Despite progresses made during the last decades, colorectal cancer remains one of the most frequent and deadly neoplasias in the western countries. Methods A genomic study of human colorectal cancer has been carried out on a total of 31 tumoral samples, corresponding to different stages of the disease, and 33 non-tumoral samples. The study was carried out by hybridisation of the tumour samples against a reference pool of non-tumoral samples using Agilent Human 1A 60-mer oligo microarrays. The results obtained were validated by qRT-PCR. In the subsequent bioinformatics analysis, gene networks by means of Bayesian classifiers, variable selection and bootstrap resampling were built. The consensus among all the induced models produced a hierarchy of dependences and, thus, of variables. Results After an exhaustive process of pre-processing to ensure data quality--lost values imputation, probes quality, data smoothing and intraclass variability filtering--the final dataset comprised a total of 8, 104 probes. Next, a supervised classification approach and data analysis was carried out to obtain the most relevant genes. Two of them are directly involved in cancer progression and in particular in colorectal cancer. Finally, a supervised classifier was induced to classify new unseen samples. Conclusions We have developed a tentative model for the diagnosis of colorectal cancer based on a biomarker panel. Our results indicate that the gene profile described herein can discriminate between non-cancerous and cancerous samples with 94.45% accuracy using different supervised classifiers (AUC values in the range of 0.997 and 0.955)

HKT2;2/1, a K+-permeable transporter identified in a salt tolerant rice cultivar through surveys of natural genetic polymorphism

We have investigated OsHKT2;1 natural variation in a collection of 49 cultivars with different levels of salt tolerance and geographical origins. The effect of identified polymorphism on OsHKT2;1 activity was analysed through heterologous expression of variants in Xenopus oocytes. OsHKT2;1 appeared to be a highly conserved protein with only five possible amino acid substitutions that have no substantial effect on functional properties. Our study, however, also identified a new HKT isoform, No-OsHKT2;2/1 in Nona Bokra, a highly salt-tolerant cultivar. No-OsHKT2;2/1 probably originated from a deletion in chromosome 6, producing a chimeric gene. Its 5¢ region corresponds to that of OsHKT2;2, whose full-length sequence is not present in Nipponbare but has been identified in Pokkali, a salt-tolerant rice cultivar. Its 3¢ region corresponds to that of OsHKT2;1. No-OsHKT2;2/1 is essentially expressed in roots and displays a significant level of expression at high Na+ concentrations, in contrast to OsHKT2;1. Expressed in Xenopus oocytes or in Saccharomyces cerevisiae, No-OsHKT2;2/1 exhibited a strong permeability to Na+ and K+, even at high external Na+ concentrations, like OsHKT2;2, and in contrast to OsHKT2;1. Our results suggest that No-OsHKT2;2/1 can contribute to Nona Bokra salt tolerance by enabling root K+ uptake under saline conditions.

Improving the analysis of road pricing acceptability surveys by using hybrid models

Several international studies have analyzed the acceptability of road pricing schemes by means of an attitude survey in combination with the results of a stated choice experiment using both a descriptive analysis and a discrete-choice model with binary choice (?accept? or ?not accept? the toll). However, the use of hybrid discrete choice models constitutes an innovative alternative for integrating subjective attitudes and perceptions deriving from the survey of attitudes with the more objective variables from the stated choice experiment. This paper analyzes the results of applying these models to measure the acceptability of interurban road pricing among different groups of stakeholders (road freight and passenger operators, highway concessionaires, and associations of private car users) with qualitatively significant opinions on road pricing measures. Our results show that hybrid models are better suited to explaining the acceptability of a road pricing scheme by different groups of stakeholders than a separate analysis of the survey of attitudes and a discrete-choice model applied on a stated choice experiment. A particular finding was that the strong psycho-social latent variable of the perception of fairness explains the rejection or acceptance of a toll scheme by road stakeholders.

Identification of a biomarker panel for colorectal cancer diagnosis

Background:Malignancies arising in the large bowel cause the second largest number of deaths from cancer in the Western World. Despite progresses made during the last decades, colorectal cancer remains one of the most frequent and deadly neoplasias in the western countries. Methods: A genomic study of human colorectal cancer has been carried out on a total of 31 tumoral samples, corresponding to different stages of the disease, and 33 non-tumoral samples. The study was carried out by hybridisation of the tumour samples against a reference pool of non-tumoral samples using Agilent Human 1A 60-mer oligo microarrays. The results obtained were validated by qRT-PCR. In the subsequent bioinformatics analysis, gene networks by means of Bayesian classifiers, variable selection and bootstrap resampling were built. The consensus among all the induced models produced a hierarchy of dependences and, thus, of variables. Results: After an exhaustive process of pre-processing to ensure data quality--lost values imputation, probes quality, data smoothing and intraclass variability filtering--the final dataset comprised a total of 8, 104 probes. Next, a supervised classification approach and data analysis was carried out to obtain the most relevant genes. Two of them are directly involved in cancer progression and in particular in colorectal cancer. Finally, a supervised classifier was induced to classify new unseen samples. Conclusions: We have developed a tentative model for the diagnosis of colorectal cancer based on a biomarker panel. Our results indicate that the gene profile described herein can discriminate between non-cancerous and cancerous samples with 94.45% accuracy using different supervised classifiers (AUC values in the range of 0.997 and 0.955).

Post-harmonised European National Travel Surveys

Look-up tables are collected and analysed for 12 European National Travel Surveys (NTS) in a harmonized way covering the age group 13-84 year. Travel behaviour measured as kilometres, time use and trips per traveller is compared. Trips per traveller are very similar over the countries whereas kilometres differ most, from minus 28% for Spain to plus 19% and 14% for Sweden and Finland. It is shown that two main factors for differences are GDP per capita and density in the urban areas. The latter is the main reason for the low level in Spain. Mode share is except for Spain with a very high level of walking trips rather similar with a higher level of cycling in the Netherlands, more public transport in Switzerland, and more air traffic in Sweden. Normally kilometres per respondent/inhabitant is used for national planning purpose and this is very affected by the share of mobile travellers. The immobile share is varying between 8 and 28% with 6 NTS at a 15-17% level. These differences are analysed and discussed and it is concluded that the immobile share should be a little less than 15-17% because it is assessed that some short trips might have been forgotten in these 6 countries. The share has a downward tendency with higher density. The resulting immobile share is very dependent on data collection methodology, sampling method, quality of interviewer felt-work etc. The paper shows other possibilities to improve local surveys based on comparison with other countries.

Una casa para Einstein: Konrad Wachsmann y la evolucion de un modelo prefabricado desde las casas "Christoph & Unmack A.G." al "General Panel System"

Este artículo estudia la evolución de un modelo de vivienda prefabricada en madera, ejemplificada en la casita de verano que construye Konrad Wachsmann para Albert Einstein en 1929 en Caputh, cerca de Potsdam. El físico deseaba construirse un "lugar de descanso", eligiendo la construcción en madera por su facilidad y rapidez de montaje, adaptabilidad, calidez y para que armonizara mejor con el medio ambiente en el paraje donde se insertaba. Konrad Wachsmann, que trabajaba para la firma de viviendas prefabricadas en madera "Christoph&Unmack A.G." le presentará un modelo prefabricado moderno. Esta tipología, que había evolucionado desde los diseños iniciales "nórdico escandinavos", pasando por el "jugendstil", hasta introducir un nuevo lenguaje de líneas puras, cubierta plana, y grandes ventanales iniciado por Poelzig, será ligeramente modificada por Einstein, que finalmente adjudica el encargo. Ayudado por Einstein a trasladarse a EEUU, Konrad Wachsmann continuará allí la labor de investigación sobre vivienda prefabricada junto con Walter Gropius, que dará como resultado el "General Panel System" y sus conocidas "Packaged Houses". A HOUSE FOR EINSTEIN: KONRAD WACHSMANN AND THE EVOLUTION OF A PREFABRICATED WOODEN HOUSING MODEL FROM " CHRISTOPH & UNMACK A.G." TO "GENERAL PANEL SYSTEM". This article studies the evolution of a prefabricated wooden housing model, exemplified in the summer house built by Konrad Wachsmann for Albert Einstein in 1929, in Caputh, near Potsdam. The Physician wanted to build a "resting house", choosing a wood construction because of its easy and fast assembly, adaptability, warmth and harmony with the environment where it would be inserted. Konrad Wachsmann, who worked for the wooden prefabricated houses firm "Christoph & Unmack AG", proposed Einstein a modern prefabricated wood model. This typology, which had evolved from the initial "Nordic Scandinavian" and "Jugendstil" designs to a new modern language initiated by Poelzig (with clean lines, flat roof, and large windows) will be slightly modified by Einstein, that finally hired the construction of the house. Aided by Einstein to move to USA, Konrad Wachsmann continued there his research work about prefabricated houses with Walter Gropius, giving as a results the "General Panel System" and the popular "Packaged Houses".

Results of students surveys in similar courses given in different centers of the Technical University of Madrid

We present and analyze the results of surveys conducted in recent years with students from two related subjects, but taught in different centers of the University of Madrid. These surveys are part of the objectives of various projects of educational innovation, and applied through the platform Moodle.

Atmospheric and remote sensing surveys evaluated at the natural analogue "Campo de Calatrava" and its relation with isotopic Radon activity and CO2 flux as strategy for CCS projects

C0 capture and storage (CCS) projects are presently developed to reduce the emission of anthropogenic co2 into the atmosphere. CCS technologies are expected to account for the 20% of the C0 reduction by 2050.The results of this paper are referred to the OXYCFB300 Compostilla Project (European Energy Program for Recover). Since the detection and control of potential leakage from storage formation is mandatory in a project of capture and geological storage of C02 (CCS), geophysical , ground deformation and geochemical monitoring have been carried out to detect potentialleakage, and, in the event that this occurs, identify and quantify it. This monitoring needs to be developed prior, during and after the injection stage. For a correct interpretation and quantification of the leakage, it is essential to establish a pre-injection characterization (baseline)of the area affected by the C02 storage at reservoir level as well as at shallow depth, surface and atmosphere, via soil gas measurements.

Ice volume estimates from ground-penetrating radar surveys, western Nordenskiöld Land glaciers, Svalbard

As part of ongoing work within the SvalGlac project aimed to obtain a reliable estimate of the total ice volume of Svalbard glaciers and their potential contribution to sea level rise, in this contribution we present volume calculations, with detailed error estimates, for ten glaciers on western Nordenskiöld Land, central Spitsbergen, Svalbard. The volume estimates are based upon a dense net of GPR-retrieved ice thickness data collected over several field campaigns spanning the period 1999-2012, all of them except one within 2010-2012. The total area and volume of the ensemble are 113.38±0.09 km2 and 10.439±0.185 km3, respectively, while the individual areas, volumes and average ice thickness lie within 2.5-49.1 km2, 0.08-5.48 km3 and 29-108 m, respectively. The maximum recorded ice thickness, 265±15 m, corresponds to Fridtjovbreen, which has also the largest average thickness (108±1m). Available empirical formulae for Svalbard glaciers overestimate the total volume of these glaciers by 24% with respect to our calculation. On the basis of the pattern of scattering in the radargrams, we also analyse the hydrothermal structure of these glaciers. Nine out of ten are polythermal, while only one is entirely cold.

Ice volume estimates from ground-penetrating radar surveys, Wedel Jarlsberg Land glaciers, Svalbard

One of the aims of the SvalGlac project is to obtain an improved estimate, with reliable error estimates, of the volume of Svalbard glaciers and their potential contribution to sea level rise. As part of this work, we present volume calculations, with detailed error estimates, for eight glaciers on Wedel Jarlsberg Land, southern Spitsbergen, Svalbard. The volume estimates are based upon a dense net of GPR-retrieved ice thickness data collected over several field campaigns spanning the period 2004-2011. The total area and volume of the ensemble are 502.9±18.6 km2 and 80.72±2.85 km3, respectively. Excluding Ariebreen (a tiny glacier, menor que 0.4 km2 in area), the individual areas, volumes and average ice thickness lie within 4.7-141.0 km2, 0.30-25.85 km3 and 64-183 m, respectively. The maximum recorded ice thickness, ca. 619±13 m, is found in Austre Torellbreen. To estimate the ice volume of small non-echo-sounded tributary glaciers, we used a function providing the best fit to the ice thickness along the centre line of a collection of such tributaries where echo-soundings were available, and assuming parabolic cross-sections. We did some tests on the effect on the measured ice volumes of the distinct radio-wave velocity (RWV) of firn as compared to ice, and cold versus temperate ice, concluding that the changes in volume implied by such corrections were within the error bounds of our volume estimate using a constant RWV for the entire glacier inferred from common mid-point measurements on the upper ablation area.

Ground-penetrating radar surveys and ice volume estimates of Wedel Jarlsberg Land glaciers, Svalbard

We present volume calculations, with detailed error estimates, for eight glaciers on Wedel Jarlsberg Land, southern Spitsbergen, Svalbard, and compare them to those obtained from area-volume scaling relationships. The volume estimates are based upon a dense net of GPR-retrieved ice thickness data collected over several field campaigns spanning the period 2004-2011.

Neighborhood mobility: A Long-Gone Pardigm? Approaching proximity and land use mix using data from home based surveys.

El WCTR es un congreso de reconocido prestigio internacional en el ámbito de la investigación del transporte y aunque las actas publicadas están en formato digital y sin ISSN ni ISBN, lo consideramos lo suficientemente importante como para que se considere en los indicadores. Policies trying to increase walking within urban mobility modal split usually highlight the importance of the functional patterns and the environmental quality of the urban space as major drivers of citizens modal choices. Functional characteristics would be mainly associated to an appropriate mix of land uses within neighbourhoods, whereas environmental quality would be associated to the characteristics of urban spaces. The purpose of this research is threefold: first, to identify relevant proxy indicators, which could characterize pedestrian-friendly land use mix and environmental quality. Second, to assess, for both traits, existing disparities among neighbourhoods in a major metropolitan area. And finally, to explore the association between both indicators and children mobility patterns: according to their built environment, which neighbourhoods have a greater proportion of children and, how is their mobility? Using data from the 2004 household mobility survey in the 128 neighbourhoods of the municipality of Madrid, this paper concludes that potentially favourable conditions at the neighbourhood level seem to have only a modest influence in,mobility patterns , in terms of both, selection of closer destinations and a higher share of walking within modal split. The citys policy choices, with intensive investment in road and public transport infrastructure may explain why short-distance mobility is not as important as it could have been expected in those neighbourhoods with more pedestrian-friendly conditions. The metropolitan transport system is providing mobility conditions, which make far-away destinations attractive to most citizens.

Explicit Expressions for Solar Panel Equivalent Circuit Parameters Based on Analytical Formulation and the Lambert W-Function

Due to the high dependence of photovoltaic energy efficiency on environmental conditions (temperature, irradiation...), it is quite important to perform some analysis focusing on the characteristics of photovoltaic devices in order to optimize energy production, even for small-scale users. The use of equivalent circuits is the preferred option to analyze solar cells/panels performance. However, the aforementioned small-scale users rarely have the equipment or expertise to perform large testing/calculation campaigns, the only information available for them being the manufacturer datasheet. The solution to this problem is the development of new and simple methods to define equivalent circuits able to reproduce the behavior of the panel for any working condition, from a very small amount of information. In the present work a direct and completely explicit method to extract solar cell parameters from the manufacturer datasheet is presented and tested. This method is based on analytical formulation which includes the use of the Lambert W-function to turn the series resistor equation explicit. The presented method is used to analyze commercial solar panel performance (i.e., the current-voltage–I-V–curve) at different levels of irradiation and temperature. The analysis performed is based only on the information included in the manufacturer’s datasheet.

Explicit expressions for solar panel equivalent circuit parameters based on analytical formulation and the Lambert W - Function

Due to the high dependence of photovoltaic energy efficiency on environmental conditions (temperature, irradiation...), it is quite important to perform some analysis focusing on the characteristics of photovoltaic devices in order to optimize energy production, even for small-scale users. The use of equivalent circuits is the preferred option to analyze solar cells/panels performance. However, the aforementioned small-scale users rarely have the equipment or expertise to perform large testing/calculation campaigns, the only information available for them being the manufacturer datasheet. The solution to this problem is the development of new and simple methods to define equivalent circuits able to reproduce the behavior of the panel for any working condition, from a very small amount of information. In the present work a direct and completely explicit method to extract solar cell parameters from the manufacturer datasheet is presented and tested. This method is based on analytical formulation which includes the use of the Lambert W-function to turn the series resistor equation explicit. The presented method is used to analyze the performance (i.e., the I - V curve) of a commercial solar panel at different levels of irradiation and temperature. The analysis performed is based only on the information included in the manufacturer's datasheet.

Neighbourhood mobility: a longgone Paradigm? Approaching "proximity" and "land use mix" using data from home-based surveys

Policies trying to increase walking within urban mobility modal split usually highlight the importance of the functional patterns and the environmental quality of the urban space as major drivers of citizens modal choices. Functional characteristics would be mainly associated to an appropriate mix of land uses within neighbourhoods, whereas environmental quality would be associated to the characteristics of urban spaces. The purpose of this research is threefold: first, to identify relevant proxy indicators, which could characterize pedestrian-friendly land use mix and environmental quality. Second, to assess, for both traits, existing disparities among neighbourhoods in a major metropolitan area. And finally, to explore the association between both indicators and children mobility patterns: according to their built environment, which neighbourhoods have a greater proportion of children and, how is their mobility? Using data from the 2004 household mobility survey in the 128 neighbourhoods of the municipality of Madrid, this paper concludes that potentially favourable conditions at the neighbourhood level seem to have only a modest influence in,mobility patterns , in terms of both, selection of closer destinations and a higher share of walking within modal split. The city s policy choices, with intensive investment in road and public transport infrastructure may explain why short-distance mobility is not as important as it could have been expected in those neighbourhoods with more pedestrian-friendly conditions. The metropolitan transport system is providing mobility conditions, which make far-away destinations attractive to most citizens.