Development of a technique for the reconstruction and validation of gene network models based on gene expression profiles
Identifikátory výsledku
Kód výsledku v IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F44555601%3A13440%2F18%3A43893642" target="_blank" >RIV/44555601:13440/18:43893642 - isvavai.cz</a>
Výsledek na webu
<a href="http://dx.doi.org/10.15587/1729-4061.2018.123634" target="_blank" >http://dx.doi.org/10.15587/1729-4061.2018.123634</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.15587/1729-4061.2018.123634" target="_blank" >10.15587/1729-4061.2018.123634</a>
Alternativní jazyky
Jazyk výsledku
angličtina
Název v původním jazyce
Development of a technique for the reconstruction and validation of gene network models based on gene expression profiles
Popis výsledku v původním jazyce
We have developed a technique for the reconstruction and validation of models of gene networks based on the gene expression profiles derived in the course of DNA microchip experiments or by the method of RNA molecules sequencing. A structural block diagram is presented of a stepwise process for determining optimal parameters of the algorithm for reconstruction of a gene network that meet the optimum network topology. We proposed a comprehensive estimation criterion of a gene network topology based on the Harrington desirability function that contains network topological parameters as constituent components. The maximum value of this criterion corresponds to the optimal topology of a gene network. A technique for the validation of models of gene networks is based on a ROC analysis whose implementation implies a comparative analysis of the character of relations between relevant genes in the network on the basis of the totality of genes and gene networks based on the obtained biclusters. Qualitative reconstruction of a gene network makes it possible to explore the nature of interaction between genes that determine the process of functioning of a biological organism at different stages of development of complex genetic diseases for the purpose of early diagnosis and correction of a given process. It was established that the gene network reconstructed based on the correlation output algorithm is more efficient in comparison with the gene network based on the algorithm ARACNE. The weighted average of relative validation criterion for the derived models based on the correlation output algorithm is significantly greater than the corresponding value when applying the algorithm of ARACNE. This fact indicates a higher degree of compliance with the character of relations between respective genes in the network based on the totality of genes and in the networks based on gene expression profiles in the obtained biclusters. Qualitative reconstruction of a gene network makes it possible to explore the character of development of a biological organism at the gene level, which creates preconditions for early diagnosis and adjustment of the development of different types of genetic diseases.
Název v anglickém jazyce
Development of a technique for the reconstruction and validation of gene network models based on gene expression profiles
Popis výsledku anglicky
We have developed a technique for the reconstruction and validation of models of gene networks based on the gene expression profiles derived in the course of DNA microchip experiments or by the method of RNA molecules sequencing. A structural block diagram is presented of a stepwise process for determining optimal parameters of the algorithm for reconstruction of a gene network that meet the optimum network topology. We proposed a comprehensive estimation criterion of a gene network topology based on the Harrington desirability function that contains network topological parameters as constituent components. The maximum value of this criterion corresponds to the optimal topology of a gene network. A technique for the validation of models of gene networks is based on a ROC analysis whose implementation implies a comparative analysis of the character of relations between relevant genes in the network on the basis of the totality of genes and gene networks based on the obtained biclusters. Qualitative reconstruction of a gene network makes it possible to explore the nature of interaction between genes that determine the process of functioning of a biological organism at different stages of development of complex genetic diseases for the purpose of early diagnosis and correction of a given process. It was established that the gene network reconstructed based on the correlation output algorithm is more efficient in comparison with the gene network based on the algorithm ARACNE. The weighted average of relative validation criterion for the derived models based on the correlation output algorithm is significantly greater than the corresponding value when applying the algorithm of ARACNE. This fact indicates a higher degree of compliance with the character of relations between respective genes in the network based on the totality of genes and in the networks based on gene expression profiles in the obtained biclusters. Qualitative reconstruction of a gene network makes it possible to explore the character of development of a biological organism at the gene level, which creates preconditions for early diagnosis and adjustment of the development of different types of genetic diseases.
Klasifikace
Druh
J<sub>SC</sub> - Článek v periodiku v databázi SCOPUS
CEP obor
—
OECD FORD obor
10201 - Computer sciences, information science, bioinformathics (hardware development to be 2.2, social aspect to be 5.8)
Návaznosti výsledku
Projekt
—
Návaznosti
N - Vyzkumna aktivita podporovana z neverejnych zdroju
Ostatní
Rok uplatnění
2018
Kód důvěrnosti údajů
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Údaje specifické pro druh výsledku
Název periodika
Eastern-European Journal of Enterprise Technologies
ISSN
1729-3774
e-ISSN
—
Svazek periodika
2018
Číslo periodika v rámci svazku
1/4 (91)
Stát vydavatele periodika
US - Spojené státy americké
Počet stran výsledku
13
Strana od-do
19-32
Kód UT WoS článku
—
EID výsledku v databázi Scopus
2-s2.0-85042799438