Dataset Information

Application of modular response analysis to medium- to large-size biological systems.

ABSTRACT: The development of high-throughput genomic technologies associated with recent genetic perturbation techniques such as short hairpin RNA (shRNA), gene trapping, or gene editing (CRISPR/Cas9) has made it possible to obtain large perturbation data sets. These data sets are invaluable sources of information regarding the function of genes, and they offer unique opportunities to reverse engineer gene regulatory networks in specific cell types. Modular response analysis (MRA) is a well-accepted mathematical modeling method that is precisely aimed at such network inference tasks, but its use has been limited to rather small biological systems so far. In this study, we show that MRA can be employed on large systems with almost 1,000 network components. In particular, we show that MRA performance surpasses general-purpose mutual information-based algorithms. Part of these competitive results was obtained by the application of a novel heuristic that pruned MRA-inferred interactions a posteriori. We also exploited a block structure in MRA linear algebra to parallelize large system resolutions.

SUBMITTER: Mekedem M

PROVIDER: S-EPMC9060349 | biostudies-literature | 2022 Apr

REPOSITORIES: biostudies-literature

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Application of modular response analysis to medium- to large-size biological systems.

Mekedem Meriem M Ravel Patrice P Colinge Jacques J

PLoS computational biology 20220420 4

The development of high-throughput genomic technologies associated with recent genetic perturbation techniques such as short hairpin RNA (shRNA), gene trapping, or gene editing (CRISPR/Cas9) has made it possible to obtain large perturbation data sets. These data sets are invaluable sources of information regarding the function of genes, and they offer unique opportunities to reverse engineer gene regulatory networks in specific cell types. Modular response analysis (MRA) is a well-accepted mathe ...[more]

PMID: 35442961

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Project description:Manufacturing industries are an asset or value added part of an economy, intimately linked with industrial and engineering design, and engaged in producing significant economic productions that can assist the national growth and development. The aim of the study was to estimate the profitability and employment growth of medium and large size industries in Ethiopia. The variables were chosen based on theoretical and experimental literature findings. In this study, an explanatory study design was implemented in carrying out this research with the prearrangement of secondary data collected from the panel data set of medium and large size manufacturing industries conducted annually by the central statistics agency over the period 2002-2011 E.C. The study employed panel data estimation methods to analyze the influence of medium and large size manufacturing industries on profitability and employment growth. Three panel data models are used: pooled ordinary least squares, fixed effect, and random effect estimation method. The Hausman test revealed the random model was the best fit for both profitability and employment growth. The diagnosticstest: normality, multicollinearity, heteroscedasticity, and autocorrelation tests were conducted on the data. The results obtained indicate that employment growth and profitability in Ethiopia are generally driven by medium and large-size manufacturing industries. The random model result shows that ownership, firm-size, advertising intensity and import intensity have a positive influence and substantial effect on profitability. But, the government has significant effect and a negative influence on profitability. The random model shows that government, advertising intensity and firm-size have significant effect and positive influence on employment growth. Nevertheless, import has significant effect and a negative influence on employment growth. Eventually, the employment growth and profitability have a positive influence and insignificant effect and the authors suggested further research in the areas by taking into account additional variables and newly emerging industries.

Dataset Information

Application of modular response analysis to medium- to large-size biological systems.

Publications

Application of modular response analysis to medium- to large-size biological systems.

Similar Datasets

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