Data-Driven Approach for Metabolite Relationship Recovery in Biological1H NMR Data Sets Using Iterative Statistical Total Correlation Spectroscopy

2011 ◽  
Vol 83 (6) ◽  
pp. 2075-2082 ◽  
Author(s):  
Caroline J. Sands ◽  
Muireann Coen ◽  
Timothy M. D. Ebbels ◽  
Elaine Holmes ◽  
John C. Lindon ◽  
...  
2005 ◽  
Vol 77 (5) ◽  
pp. 1282-1289 ◽  
Author(s):  
Olivier Cloarec ◽  
Marc-Emmanuel Dumas ◽  
Andrew Craig ◽  
Richard H. Barton ◽  
Johan Trygg ◽  
...  

Algorithms ◽  
2021 ◽  
Vol 14 (5) ◽  
pp. 154
Author(s):  
Marcus Walldén ◽  
Masao Okita ◽  
Fumihiko Ino ◽  
Dimitris Drikakis ◽  
Ioannis Kokkinakis

Increasing processing capabilities and input/output constraints of supercomputers have increased the use of co-processing approaches, i.e., visualizing and analyzing data sets of simulations on the fly. We present a method that evaluates the importance of different regions of simulation data and a data-driven approach that uses the proposed method to accelerate in-transit co-processing of large-scale simulations. We use the importance metrics to simultaneously employ multiple compression methods on different data regions to accelerate the in-transit co-processing. Our approach strives to adaptively compress data on the fly and uses load balancing to counteract memory imbalances. We demonstrate the method’s efficiency through a fluid mechanics application, a Richtmyer–Meshkov instability simulation, showing how to accelerate the in-transit co-processing of simulations. The results show that the proposed method expeditiously can identify regions of interest, even when using multiple metrics. Our approach achieved a speedup of 1.29× in a lossless scenario. The data decompression time was sped up by 2× compared to using a single compression method uniformly.


2018 ◽  
Vol 2 (10) ◽  
pp. 735-742 ◽  
Author(s):  
Martin Gerlach ◽  
Beatrice Farb ◽  
William Revelle ◽  
Luís A. Nunes Amaral

2014 ◽  
Vol 31 (5) ◽  
pp. 44-56 ◽  
Author(s):  
Ali Tajer ◽  
Venugopal V. Veeravalli ◽  
H. Vincent Poor

2021 ◽  
Vol 12 ◽  
Author(s):  
Akio Onogi ◽  
Daisuke Sekine ◽  
Akito Kaga ◽  
Satoshi Nakano ◽  
Tetsuya Yamada ◽  
...  

It has not been fully understood in real fields what environment stimuli cause the genotype-by-environment (G × E) interactions, when they occur, and what genes react to them. Large-scale multi-environment data sets are attractive data sources for these purposes because they potentially experienced various environmental conditions. Here we developed a data-driven approach termed Environmental Covariate Search Affecting Genetic Correlations (ECGC) to identify environmental stimuli and genes responsible for the G × E interactions from large-scale multi-environment data sets. ECGC was applied to a soybean (Glycine max) data set that consisted of 25,158 records collected at 52 environments. ECGC illustrated what meteorological factors shaped the G × E interactions in six traits including yield, flowering time, and protein content and when these factors were involved in the interactions. For example, it illustrated the relevance of precipitation around sowing dates and hours of sunshine just before maturity to the interactions observed for yield. Moreover, genome-wide association mapping on the sensitivities to the identified stimuli discovered candidate and known genes responsible for the G × E interactions. Our results demonstrate the capability of data-driven approaches to bring novel insights on the G × E interactions observed in fields.


2019 ◽  
Vol 141 (12) ◽  
Author(s):  
Dedy Suryadi ◽  
Harrison M. Kim

Abstract This paper proposes a data-driven methodology to automatically identify product usage contexts from online customer reviews. Product usage context is one of the factors that affect product design, consumer behavior, and consumer satisfaction. The previous works identify the usage contexts using the survey-based method or subjectively determine them. The proposed methodology, on the other hand, uses machine learning and Natural Language Processing tools to identify and cluster usage contexts from a large volume of customer reviews. Furthermore, aspect sentiment analysis is applied to capture the sentiment toward a particular usage context in a sentence. The methodology is implemented to two data sets of products, i.e., laptop and tablet. The result shows that the methodology is able to capture relevant product usage contexts and cluster bigrams that refer to similar usage context. The aspect sentiment analysis enables the observation of a product’s position with respect to its competitors for a particular usage context. For a product designer, the observation may indicate a requirement to improve the product. It may also indicate a possible market opportunity in a usage context in which most of the current products are perceived negatively by customers. Finally, it is shown that overall rating might not be a strong indicator for representing customer sentiment toward a particular usage context, due to the moderate linear correlation for most of the usage contexts in the case study.


2012 ◽  
Vol 2012 ◽  
pp. 1-11 ◽  
Author(s):  
Inga Liepelt-Scarfone ◽  
Susanne Gräber ◽  
Monika Fruhmann Berger ◽  
Anne Feseker ◽  
Gülsüm Baysal ◽  
...  

Parkinson’s disease is characterized by a substantial cognitive heterogeneity, which is apparent in different profiles and levels of severity. To date, a distinct clinical profile for patients with a potential risk of developing dementia still has to be identified. We introduce a data-driven approach to detect different cognitive profiles and stages. Comprehensive neuropsychological data sets from a cohort of 121 Parkinson’s disease patients with and without dementia were explored by a factor analysis to characterize different cognitive domains. Based on the factor scores that represent individual performance in each domain, hierarchical cluster analyses determined whether subgroups of Parkinson’s disease patients show varying cognitive profiles. A six-factor solution accounting for 65.2% of total variance fitted best to our data and revealed high internal consistencies (Cronbach’s alpha coefficients>0.6). The cluster analyses suggested two independent patient clusters with different cognitive profiles. They differed only in severity of cognitive impairment and self-reported limitation of activities of daily living function but not in motor performance, disease duration, or dopaminergic medication. Based on a data-driven approach, divers cognitive profiles were identified, which separated early and more advanced stages of cognitive impairment in Parkinson’s disease without dementia. Importantly, these profiles were independent of motor progression.


2021 ◽  
Author(s):  
Akio Onogi ◽  
Daisuke Sekine ◽  
Akito Kaga ◽  
Satoshi Nakano ◽  
Tetsuya Yamada ◽  
...  

It has not been fully understood in real fields what environment stimuli cause the genotype-by-environment (G x E) interactions, when they occur, and what genes react to them. Large-scale multi-environment data sets are attractive data sources for these purposes because they potentially experienced various environmental conditions. Here we developed a data-driven approach termed Environmental Covariate Search Affecting Genetic Correlations (ECGC) to identify environmental stimuli and genes responsible for the G x E interactions from large-scale multi-environment data sets. ECGC was applied to a soybean (Glycine max) data set that consisted of 25,158 records collected at 52 environments. ECGC illustrated what meteorological factors shaped the G x E interactions in six traits including yield, flowering time, and protein content and when they were involved. For example, it illustrated the relevance of precipitation around sowing dates and hours of sunshine just before maturity to the interactions observed for yield. Moreover, genome-wide association mapping on the sensitivities to the identified stimuli discovered candidate and known genes responsible for the G x E interactions. Our results demonstrate the capability of data-driven approaches to bring novel insights on the G x E interactions observed in fields.


2021 ◽  
Author(s):  
Tao Wu ◽  
Hanzhi Fang ◽  
Hu Sun ◽  
Feifei Zhang ◽  
Xi Wang ◽  
...  

Abstract Unconventional reservoirs such as shale and tight sandstones that with ultra-low permeability, are becoming increasingly significant in global energy structures (Pejman T, et al., 2017). For these reservoirs, successful hydraulic fracturing is the key to extract the hydrocarbon resources efficiently and economically. However, the intrinsic mechanisms of fracturing growth in the tight formations are still unclear. In practice, fracturing design mainly depends on hypothetical models and previous experience, which leads to difficulties in evaluating the performance of the fracturing jobs. Therefore, an improved method to optimize parameters for fracturing is necessary and beneficial to the industry. In this paper, a data-driven approach is used to evaluate the factors that dominate the production rate from tight sandstone formation in Changqing Field which is the largest oil field in China. In the model, the input parameters are classified into two categories: controllable parameters (e.g. stage numbers, fracturing fluid volume) and uncontrollable parameters (e.g. formation properties), and the output parameter is the accumulated oil production of the wells. Data for more than 100 wells from different formations and zones in Changqing Field are collected for this study. First, a stepwise data mining method is used to identify the correlations between the target parameter and all the available input parameters. Then, a machine learning model is developed to predict the well productivity for a given set of input parameters accurately. The model is validated by using separate data-sets from the same field. An optimize algorithm is combined with the data-driven model to maximize the cumulative oil production for wells by tuning the controllable parameters, which provides the optimized fracturing design. By using the developed model, low productivity wells are identified and new fracturing designs are recommended to improve the well productivity. This paper is useful for understanding the effects of designed fracturing parameters on well productivity in Changqing Oilfield. Furthermore, it can be extended to other unconventional oil fields by training the model with according data sets. The method helps operators to select more effective parameters for fracturing design, and therefore reduce the operation costs for fracturing and improve the oil and gas production.


2009 ◽  
Vol 81 (6) ◽  
pp. 2075-2084 ◽  
Author(s):  
Alexessander Couto Alves ◽  
Mattias Rantalainen ◽  
Elaine Holmes ◽  
Jeremy K. Nicholson ◽  
Timothy M. D. Ebbels

Sign in / Sign up

Export Citation Format

Share Document