Evaluation of the effect of chance correlations on variable selection using Partial Least Squares -Discriminant Analysis

Variable subset selection is often mandatory in high throughput metabolomics and proteomics. However, depending on the variable to sample ratio there is a significant susceptibility of variable selection towards chance correlations. The evaluation of the predictive capabilities of PLSDA models estimated by cross-validation after feature selection provides overly optimistic results if the selection is performed on the entire set and no external validation set is available. In this work, a simulation of the statistical null hypothesis is proposed to test whether the discrimination capability of a PLSDA model after variable selection estimated by cross-validation is statistically higher than that attributed to the presence of chance correlations in the original data set. Statistical significance of PLSDA CV-figures of merit obtained after variable selection is expressed by means of p-values calculated by using a permutation test that included the variable selection step. The reliability of the approach is evaluated using two variable selection methods on experimental and simulated data sets with and without induced class differences. The proposed approach can be considered as a useful tool when no external validation set is available and provides a straightforward way to evaluate differences between variable selection methods.JE and JK acknowledge the "Sara Borrell" Grants (CD11/00154 and CD12/00667) from the Instituto Carlos III (Ministry of Economy and Competitiveness). DPG acknowledge the "V Segles" Grant provided by the University of Valencia to carry out this study. MV acknowledges the FISPI11/0313 Grant from the Instituto Carlos III (Ministry of Economy and Competitiveness). AF acknowledges the DPI2011-28112-C04-02 Grant from Spanish Ministry of Science and Innovation (MICINN). GQ acknowledges the financial support from the Spanish Ministry of Economy and Competitivity (SAF2012-39948).Kuligowski, J.; Pérez Guaita, D.; Escobar, J.; Guardia, MDL.; Vento, M.; Ferrer Riquelme, AJ.; Quintás, G. (2013). Evaluation of the effect of chance correlations on variable selection using Partial Least Squares -Discriminant Analysis. Talanta. 116:835-840. https://doi.org/10.1016/j.talanta.2013.07.048S83584011

Hydrotherapy as a recovery strategy after exercise: a pragmatic controlled trial

Trial registration ClinicalTrials.gov Identifier: NCT01765387Background Our aim was to evaluate the recovery effects of hydrotherapy after aerobic exercise in cardiovascular, performance and perceived fatigue. Methods A pragmatic controlled repeated measures; single-blind trial was conducted. Thirty-four recreational sportspeople visited a Sport-Centre and were assigned to a Hydrotherapy group (experimental) or rest in a bed (control) after completing a spinning session. Main outcomes measures including blood pressure, heart rate, handgrip strength, vertical jump, self-perceived fatigue, and body temperature were assessed at baseline, immediately post-exercise and post-recovery. The hypothesis of interest was the session*time interaction. Results The analysis revealed significant session*time interactions for diastolic blood pressure (P=0.031), heart rate (P=0.041), self perceived fatigue (P=0.046), and body temperature (P=0.001); but not for vertical jump (P=0.437), handgrip (P=0.845) or systolic blood pressure (P=0.266). Post-hoc analysis revealed that hydrotherapy resulted in recovered heart rate and diastolic blood pressure similar to baseline values after the spinning session. Further, hydrotherapy resulted in decreased self-perceived fatigue after the spinning session. Conclusions Our results support that hydrotherapy is an adequate strategy to facilitate cardiovascular recovers and perceived fatigue, but not strength, after spinning exercise

ANCA-associated vasculitis.

The anti-neutrophil cytoplasmic antibody (ANCA)-associated vasculitides (AAVs) are a group of disorders involving severe, systemic, small-vessel vasculitis and are characterized by the development of autoantibodies to the neutrophil proteins leukocyte proteinase 3 (PR3-ANCA) or myeloperoxidase (MPO-ANCA). The three AAV subgroups, namely granulomatosis with polyangiitis (GPA), microscopic polyangiitis and eosinophilic GPA (EGPA), are defined according to clinical features. However, genetic and other clinical findings suggest that these clinical syndromes may be better classified as PR3-positive AAV (PR3-AAV), MPO-positive AAV (MPO-AAV) and, for EGPA, by the presence or absence of ANCA (ANCA+ or ANCA-, respectively). Although any tissue can be involved in AAV, the upper and lower respiratory tract and kidneys are most commonly and severely affected. AAVs have a complex and unique pathogenesis, with evidence for a loss of tolerance to neutrophil proteins, which leads to ANCA-mediated neutrophil activation, recruitment and injury, with effector T cells also involved. Without therapy, prognosis is poor but treatments, typically immunosuppressants, have improved survival, albeit with considerable morbidity from glucocorticoids and other immunosuppressive medications. Current challenges include improving the measures of disease activity and risk of relapse, uncertainty about optimal therapy duration and a need for targeted therapies with fewer adverse effects. Meeting these challenges requires a more detailed knowledge of the fundamental biology of AAV as well as cooperative international research and clinical trials with meaningful input from patients

Investigating office buildings evacuations using unannounced fire drills: The case study of CERN, Switzerland

The main objective of this paper is to explore evacuees’ behaviour during an unannounced fire drill using data collected in two office buildings located at CERN, in Switzerland. Overall, a total of 142 pre-evacuation time measurements, 121 evacuee walking speed measurements in staircase configurations, and 336 evacuee walking speed measurements on floor configurations are included in the dataset. These data were compared with the existing evacuation data for office buildings. This comparison revealed that the pre-evacuation times measured in the present study are significantly lower compared to existing data from the literature for the same type of occupancy. Walking speed data collected in corridors in the present study is within the range of the values reported in previous studies. Further, walking speeds on descending stairways measured in the present study were significantly higher than those available in the literature. However, the novel dataset presented in this study is in accordance with the values recommended in well-known guidelines (such as the SFPE Handbook) and could be used in the future to simulate evacuations of office buildings

Science based calibration for the extraction of 'analyte-specific' HPLC-DAD chromatograms in environmental analysis

Multivariate science based calibration (SBC) has been applied to the resolution of overlapped peaks in liquid chromatography with diode array detection (LC-DAD). Complex river water samples spiked with 11 pharmaceutical substances resulted in poorly resolved chromatograms containing additional peaks from interfering matrix compounds and a change in the background absorbance due to the mobile phase gradient. Applying the present multivariate approach it was possible to resolve all 11 analytes from overlapping peaks, obtaining linear calibration lines (R2 > 0.96). Recovery percentages on spiked samples ranged between 74.6 and 113.5%, which are quite satisfactory taking into account the low concentration ranges considered to 1-7 μg L-1.Fil: Kuligowski, J.. Universidad de Valencia; EspañaFil: Martínez Galera, M.. Universidad de Almería; EspañaFil: Gil García, M. D.. Universidad de Almería; EspañaFil: Culzoni, Maria Julia. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe; Argentina. Universidad Nacional del Litoral. Facultad de Bioquímica y Ciencias Biológicas; ArgentinaFil: Goicoechea, Hector Casimiro. Universidad Nacional del Litoral. Facultad de Bioquímica y Ciencias Biológicas; Argentina. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Santa Fe; ArgentinaFil: Garrigues, S.. Universidad de Valencia; EspañaFil: Quintás, G.. Universidad de Valencia; EspañaFil: de la Guardia, Miguel. Universidad de Valencia; Españ

Capture of influenza by medullary dendritic cells via SIGN-R1 is essential for humoral immunity in draining lymph nodes.

A major pathway for B cell acquisition of lymph-borne particulate antigens relies on antigen capture by subcapsular sinus macrophages of the lymph node. Here we tested whether this mechanism is also important for humoral immunity to inactivated influenza virus. By multiple approaches, including multiphoton intravital imaging, we found that antigen capture by sinus-lining macrophages was important for limiting the systemic spread of virus but not for the generation of influenza-specific humoral immunity. Instead, we found that dendritic cells residing in the lymph node medulla use the lectin receptor SIGN-R1 to capture lymph-borne influenza virus and promote humoral immunity. Thus, our results have important implications for the generation of durable humoral immunity to viral pathogens through vaccination

Background Correction and Multivariate Curve Resolution of Online Liquid Chromatography with Infrared Spectrometric Detection

J.K. acknowledges the “V Segles” grant provided by the University of Valencia to carry out this study. Authors acknowledge the financial support of Ministerio de Educación y Ciencia (Projects AGL2007-64567 and CTQ2008-05719/BQU) and Conselleria d'Educació de la Generalitat Valenciana (Project PROMETEO 2010-055).The use of multivariate curve resolution–alternating least-squares (MCR-ALS) in liquid chromatography–infrared detection (LC-IR) is troublesome due to the intense background absorption changes during gradient elution. Its use has been facilitated by previous removal of a significant part of the solvent background IR contributions due to common mobile phase systems employed during reversed phase gradient applications. Two straightforward background correction approaches based on simple-to-use interactive self-modeling mixture analysis (SIMPLISMA) and principal component analysis (PCA) are proposed and evaluated on reversed phase gradient LC-IR data sets obtained during the analysis of carbohydrate and nitrophenol mixtures. After subtraction of the calculated background signal, MCR-ALS provided improved signal-to-noise ratios, removed remaining mobile phase and background signal contributions, and resolved overlapping chromatographic peaks. The present approach tends to enable easy-to-use background correction to facilitate the use of MCR-ALS in online LC-IR, even in challenging situations when gradient conditions are employed and only poor chromatographic resolution is achieved. It, therefore, shows great potential to facilitate the full exploitation of the advantages of simultaneous quantification and identification of a vast amount of analytes employing online IR detection, making new exciting applications more accessible.Peer reviewe