Population-based multicase-control study in common tumors in Spain (MCC-Spain): rationale and study design

Introduction: We present the protocol of a large population-based case-control study of 5 common tumors in Spain (MCC-Spain) that evaluates environmental exposures and genetic factors. Methods: Between 2008-2013, 10,183 persons aged 20-85 years were enrolled in 23 hospitals and primary care centres in 12 Spanish provinces including 1,115 cases of a new diagnosis of prostate cancer, 1,750 of breast cancer, 2,171 of colorectal cancer, 492 of gastro-oesophageal cancer, 554 cases of chronic lymphocytic leukaemia (CLL) and 4,101 population-based controls matched by frequency to cases by age, sex and region of residence. Participation rates ranged from 57% (stomach cancer) to 87% (CLL cases) and from 30% to 77% in controls. Participants completed a face-to-face computerized interview on sociodemographic factors, environmental exposures, occupation, medication, lifestyle, and personal and family medical history. In addition, participants completed a self-administered food-frequency questionnaire and telephone interviews. Blood samples were collected from 76% of participants while saliva samples were collected in CLL cases and participants refusing blood extractions. Clinical information was recorded for cases and paraffin blocks and/or fresh tumor samples are available in most collaborating hospitals. Genotyping was done through an exome array enriched with genetic markers in specific pathways. Multiple analyses are planned to assess the association of environmental, personal and genetic risk factors for each tumor and to identify pleiotropic effects. Discussion: This study, conducted within the Spanish Consortium for Biomedical Research in Epidemiology & Public Health (CIBERESP), is a unique initiative to evaluate etiological factors for common cancers and will promote cancer research and prevention in Spain.The study was partially funded by the “Accion Transversal del Cancer”, approved on the Spanish Ministry Council on the 11th October 2007, by the Instituto de Salud Carlos III-FEDER (PI08/1770, PI08/0533, PI08/1359, PS09/00773, PS09/01286, PS09/01903, PS09/02078, PS09/01662, PI11/01403, PI11/01889, PI11/00226, PI11/01810, PI11/02213, PI12/00488, PI12/00265, PI12/01270, PI12/00715, PI12/00150), by the Fundación Marqués de Valdecilla (API 10/09), by the ICGC International Cancer Genome Consortium CLL, by the Junta de Castilla y León (LE22A10-2), by the Consejería de Salud of the Junta de Andalucía (PI-0571), by the Conselleria de Sanitat of the Generalitat Valenciana (AP 061/10), by the Recercaixa (2010ACUP 00310), by the Regional Government of the Basque Country by European Commission grants FOOD-CT- 2006-036224-HIWATE, by the Spanish Association Against Cancer (AECC) Scientific Foundation, by the The Catalan Government DURSI grant 2009SGR1489

First systematic meteorological observations of the Americas (Recife, 1640-1642) - wind direction, precipitation, fog, thunder, and lightning

Daily systematic meteorological observations made by George Marcgrave in Recife from 1640 to 1642 have been retrieved. These observations were published in 1658 by Piso in “De Indiae utriusque re naturali et medica”. Specifically, in chapter two “De Aeris temperie atque Anni tempestatibus” of the first book entitled “Tractatus topographicus et meteorologicus Brasiliae, cum observatione eclipsis Solaris”. Marcgrave recorded meteorological observations during six years with sub-daily resolution, nevertheless Piso only published the daily observations relative to the years of 1640, 1641 and 1642. The observations are recorded in three tables, one per year, that show the wind direction and the presence of rainfall. Rainy days are identified with a “p.” (from pluvia), about the meaning of a rainy day for Marcgrave, he writes “In these tables, we have noted with the letter P all the days on which even a very fine and brief rain fell so that no one thinks that during those days it rained continuously”. The wind direction is registered in 24 directions using letters according to the Franco names e.g. N (Nordoni), E (Ostroni), S (Sundroni), W (Vuestroni). This is known thanks to a Marcgrave's annotation “We have annotated the winds with letters: S.O. designates the Euro, N.O. the Boreas or Aquilon”. SO are the initials of Sundostroni and correspond with the SE direction in which the Euro wind blows. NO are the initials of Nordostroni, which corresponds with the NE direction in which the Aquilon or Boreas blow. The chapter shows not tabulated information in text format among tables, this informs about the days with fog, thunders, and lightning. All the meteorological information has been digitized by 'key entry'. These observations are the first systematic meteorological observations from the Americas and from the southern hemisphere. Although the observations retrieved cover only three years, they are very interesting due to the singular climate forcing situation i.e. one solar cycle before (1635-1645) the Maunder minimum (1645-1715) and two eruptions with a clear impact on the climatic system in 1640 (Parker, Philippines and Hokkaido-Komagatake, Japan)

The first systematic meteorological observations in the Americas (Recife, 1640–42)

In 1639, the German naturalist Georg Marcgraf established the first astronomical observatory in the Americas, located in Recife (Brazil). There, he made the first daily systematic meteorological observations of wind direction, precipitation, fog, and thunder and lightning from 1640 to 1642. We outline the circumstances that led to this observatory being established and analyze the observations. The range of values obtained from all the variables recorded by Marcgraf corresponds well with Recife’s current climate. However, wetter-than-normal conditions were recorded during 1640, while anomalous concentrations of foggy days occurred from May to December 1641. We hypothesize that these anomalous record foggy days could be associated with the highly explosive eruptions of the Komagatake and Parker volcanoes, both in 1640

Discovering HIV related information by means of association rules and machine learning

Acquired immunodeficiency syndrome (AIDS) is still one of the main health problems worldwide. It is therefore essential to keep making progress in improving the prognosis and quality of life of affected patients. One way to advance along this pathway is to uncover connections between other disorders associated with HIV/AIDS-so that they can be anticipated and possibly mitigated. We propose to achieve this by using Association Rules (ARs). They allow us to represent the dependencies between a number of diseases and other specific diseases. However, classical techniques systematically generate every AR meeting some minimal conditions on data frequency, hence generating a vast amount of uninteresting ARs, which need to be filtered out. The lack of manually annotated ARs has favored unsupervised filtering, even though they produce limited results. In this paper, we propose a semi-supervised system, able to identify relevant ARs among HIV-related diseases with a minimal amount of annotated training data. Our system has been able to extract a good number of relationships between HIV-related diseases that have been previously detected in the literature but are scattered and are often little known. Furthermore, a number of plausible new relationships have shown up which deserve further investigation by qualified medical experts

A community-built calibration system: The case study of quantification of metabolites in grape juice by qNMR spectroscopy

Nuclear Magnetic Resonance (NMR) is an analytical technique extensively used in almost every chemical laboratory for structural identification. This technique provides statistically equivalent signals in spite of using spectrometer with different hardware features and is successfully used for the traceability and quantification of analytes in food samples. Nevertheless, to date only a few internationally agreed guidelines have been reported on the use of NMR for quantitative analysis. The main goal of the present study is to provide a methodological pipeline to assess the reproducibility of NMR data produced for a given matrix by spectrometers from different manufacturers, with different magnetic field strengths, age and hardware configurations. The results have been analyzed through a sequence of chemometric tests to generate a community-built calibration system which was used to verify the performance of the spectrometers and the reproducibility of the predicted sample concentrations

Contemporary use of cefazolin for MSSA infective endocarditis: analysis of a national prospective cohort

Objectives: This study aimed to assess the real use of cefazolin for methicillin-susceptible Staphylococcus aureus (MSSA) infective endocarditis (IE) in the Spanish National Endocarditis Database (GAMES) and to compare it with antistaphylococcal penicillin (ASP). Methods: Prospective cohort study with retrospective analysis of a cohort of MSSA IE treated with cloxacillin and/or cefazolin. Outcomes assessed were relapse; intra-hospital, overall, and endocarditis-related mortality; and adverse events. Risk of renal toxicity with each treatment was evaluated separately. Results: We included 631 IE episodes caused by MSSA treated with cloxacillin and/or cefazolin. Antibiotic treatment was cloxacillin, cefazolin, or both in 537 (85%), 57 (9%), and 37 (6%) episodes, respectively. Patients treated with cefazolin had significantly higher rates of comorbidities (median Charlson Index 7, P <0.01) and previous renal failure (57.9%, P <0.01). Patients treated with cloxacillin presented higher rates of septic shock (25%, P = 0.033) and new-onset or worsening renal failure (47.3%, P = 0.024) with significantly higher rates of in-hospital mortality (38.5%, P = 0.017). One-year IE-related mortality and rate of relapses were similar between treatment groups. None of the treatments were identified as risk or protective factors. Conclusion: Our results suggest that cefazolin is a valuable option for the treatment of MSSA IE, without differences in 1-year mortality or relapses compared with cloxacillin, and might be considered equally effective