scholarly journals Automated analysis of large-scale NMR data generates metabolomic signatures and links them to candidate metabolites

2019 ◽  
Author(s):  
Bita Khalili ◽  
Mattia Tomasoni ◽  
Mirjam Mattei ◽  
Roger Mallol Parera ◽  
Reyhan Sonmez ◽  
...  
Keyword(s):  
Principal Component Analysis ◽  
Human Urine ◽  
Nmr Spectra ◽  
Large Scale ◽  
Principal Component ◽  
Automated Analysis ◽  
Urine Samples ◽  
H Nmr ◽  
Nmr Data

AbstractIdentification of metabolites in large-scale 1H NMR data from human biofluids remains challenging due to the complexity of the spectra and their sensitivity to pH and ionic concentrations. In this work, we test the capacity of three analysis tools to extract metabolite signatures from 968 NMR profiles of human urine samples. Specifically, we studied sets of co-varying features derived from Principal Component Analysis (PCA), the Iterative Signature Algorithm (ISA) and Averaged Correlation Profiles (ACP), a new method we devised inspired by the STOCSY approach. We used our previously developed metabomatching method to match the sets generated by these algorithms to NMR spectra of individual metabolites available in public databases. Based on the number and quality of the matches we concluded that both ISA and ACP can robustly identify about a dozen metabolites, half of which were shared, while PCA did not produce any signatures with robust matches.

scholarly journals Validation of the Arabic version of the “12-item short-form health survey” (SF-12) in a sample of Lebanese adults

2021 ◽  
Vol 79 (1) ◽  
Author(s):  
Chadia Haddad ◽  
Hala Sacre ◽  
Sahar Obeid ◽  
Pascale Salameh ◽  
Souheil Hallit
Keyword(s):  
Quality Of Life ◽  
Principal Component Analysis ◽  
Psychometric Properties ◽  
Short Form ◽  
Principal Component ◽  
Arabic Version ◽  
Short Form Health Survey ◽  
Form Health ◽  
Short Form Health

Abstract Background In clinical practice, quality of life measures can be used alongside some types of assessment to give valuable information that can identify areas that influence an individual and help the clinician make the best healthcare choices. This study aimed to investigate the psychometric properties of the Arabic version of the 12-item short-form health survey (SF-12) in a sample of Lebanese adults. Methods This cross-sectional study performed between July and November 2019 recruited 269 participants. Cronbach’s alpha was used to assess the reliability of the SF-12 questionnaire, and a factor analysis using the principal component analysis was performed to confirm its construct validity. Results The mean score for the “physical component summary (PCS-12)” was 50.27 ± 8.94 (95 % CI: 49.18–51.36) and for the “Mental component summary (MCS-12)” was 44.95 ± 12.17 (95 % CI: 43.47–46.43). A satisfactory Cronbach’s alpha was found for the two components: MCS (α = 0.707) and PCS (α = 0.743). The principal component analysis converged over a two-factor solution (physical and mental), explaining a total variance of 55.75 %. Correlations between the SF-12 scales and single items were significant, showing a good construct validity. The “physical functioning”, “role physical”, “bodily pain”, and “general health” subscales were highly associated with “PCS-12”, while the “vitality”, “social functioning”, “role emotional”, and “mental health” subscales were more associated with MCS-12. Conclusions The Arabic version of the SF-12 is a reliable, easy-to-use, and valid tool to measure health-related quality of life in the general population. Future studies using a larger sample size and focusing on questionnaire psychometric properties are necessary to confirm our findings.

Availability and Spatial Inequality of Rural Infrastructure in Jungle Mahal Blocks of Purulia District, India

2021 ◽  
pp. 232102492110082
Author(s):  
Uttam Kumar Patra ◽  
Suman Paul
Keyword(s):  
Quality Of Life ◽  
Principal Component Analysis ◽  
Regional Development ◽  
Principal Component ◽  
Spatial Inequality ◽  
Rural Infrastructure ◽  
Financial Infrastructure ◽  
Purulia District ◽  
Dimension Index

Rural infrastructure is fundamental and central to the concept of quality of life as well as human development. The major characteristic of regional development is the constant widening of regional disparity in India after different plan period. Various Finance Commissions and Planning Commissions laid emphasis on the objective of achieving balanced regional development. The article identifies a gap in terms of education, health, communication and financial infrastructure in the study of panchayats of Jungle Mahal blocks. Mapping of regional disparities can aid in effective policymaking at the preliminary stage of planning. Panchayat level inequality has been analysing using dimension index and principal component analysis (PCA). Wide disparities in the availability of rural infrastructure have been pointed out and proper recommendation has also been made to minimise the gap in spatial inequality.

Abstract 262: Derivation of Duchenne Muscular Dystrophy Disease Specific Cardiomyocytes From Patient Urine

2013 ◽  
Vol 113 (suppl_1) ◽  
Author(s):  
Xuan Guan ◽  
David L Mack ◽  
Claudia M Moreno ◽  
Fernando Santana ◽  
Charles E Murry ◽  
...  
Keyword(s):  
Stem Cells ◽  
Human Urine ◽  
Large Scale ◽  
Lentiviral Vector ◽  
Cellular Reprogramming ◽  
Urine Samples ◽  
Pcr Analysis ◽  
Scale Production ◽  
Mechanism Study

Introduction: Human somatic cells can be reprogrammed into primitive stem cells, termed induced pluripotent stem cells (iPSCs). These iPSCs can be extensively expanded in vitro and differentiated into multiple functional cell types, enabling faithful preservation of individual’s genotype and large scale production of disease targeted cellular components. These unique cellular reagents thus hold tremendous potential in disease mechanism study, drugs screening and cell replacement therapy. Due to the genetic mutation of the protein dystrophin, many DMD patients develop fatal cardiomyopathy with no effective treatment. The underlying pathogenesis has not been fully elucidated. Hypothesis: We tested the hypothesis that iPSCs could be generated from DMD patients’ urine samples and differentiated into cardiomyocytes, recapitulating the dystrophic phenotype. Methods: iPSCs generation was achieved by introducing a lentiviral vector expressing Oct4, Sox2, c-Myc and Klf4 into cells derived from patient’s (n=1) and healthy volunteers’ (n=3) urine. Cardiomyocytes were derived by sequentially treating iPSCs with GSK3 inhibitor CHIR99021 and Wnt inhibitor IWP4. Differentiated cardiomyocytes were subjected to calcium imaging, electrophysiology recording, Polymerase Chain Reaction (PCR) analysis, and immunostaining. Results: iPSCs were efficiently generated from human urine samples and further forced to differentiate into contracting cardiomyocytes. PCR analysis and immunostaining confirmed the expression of a panel of cardiac markers. Both normal and patient iPSC derived cardiomyocytes exhibited spontaneous and field stimulated calcium transients (up to 2Hz), as well as action potentials with ventricular-like and nodal-like characteristics. Anti-dystrophin antibodies stained normal iPSC-derived cardiomyocyte membranes but did not react against DMD iPSC-derived cardiomyocytes. Conclusions: Cardiomyocytes can be efficiently generated from human urine, through the cellular reprogramming technology. DMD cardiomyocytes retained the patient’s genetic information and manifested a dystrophin-null phenotype. Functional assessments are underway to determine differences that may exist between genotypes.

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