Exploratory analysis of neuroblastoma data genes expressions based on bioconductor package tools

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F44555601%3A13440%2F19%3A43894818" target="_blank" >RIV/44555601:13440/19:43894818 - isvavai.cz</a>

Výsledek na webu

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DOI - Digital Object Identifier

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Jazyk výsledku

angličtina

Název v původním jazyce

Exploratory analysis of neuroblastoma data genes expressions based on bioconductor package tools

Popis výsledku v původním jazyce

The technique of gene expression profiles exploratory analysis on the basis of the use of Bioconductor package tools is presented in the paper. Applying this method allows forming the matrix of genes expression for further gene regulatory networks reconstruction and simulation of the obtained model. The gene expression profiles of human neuroblastoma cells obtained using high throughput RNA-sequencing technique have been used as the experimental data to evaluate the effectiveness of the appropriate step implementation. Applying of the proposed technique involved removing low expressed genes at the first step. The number of genes was reduced from 53186 to 7435 at this step. The filtered gene expression profiles normalizing was considered at the next step. The quality of data normalizing was evaluated by both various graphic tools and using quantitative criterion, which was calculated based on the cluster analysis for the samples which were previously distributed into clusters.

Název v anglickém jazyce

Exploratory analysis of neuroblastoma data genes expressions based on bioconductor package tools

Popis výsledku anglicky

The technique of gene expression profiles exploratory analysis on the basis of the use of Bioconductor package tools is presented in the paper. Applying this method allows forming the matrix of genes expression for further gene regulatory networks reconstruction and simulation of the obtained model. The gene expression profiles of human neuroblastoma cells obtained using high throughput RNA-sequencing technique have been used as the experimental data to evaluate the effectiveness of the appropriate step implementation. Applying of the proposed technique involved removing low expressed genes at the first step. The number of genes was reduced from 53186 to 7435 at this step. The filtered gene expression profiles normalizing was considered at the next step. The quality of data normalizing was evaluated by both various graphic tools and using quantitative criterion, which was calculated based on the cluster analysis for the samples which were previously distributed into clusters.

Druh

D - Stať ve sborníku

CEP obor

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OECD FORD obor

10201 - Computer sciences, information science, bioinformathics (hardware development to be 2.2, social aspect to be 5.8)

Projekt

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Návaznosti

I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Rok uplatnění

2019

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název statě ve sborníku

CEUR Workshop Proceedings

ISBN

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ISSN

1613-0073

e-ISSN

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Počet stran výsledku

12

Strana od-do

268-279

Název nakladatele

CEUR-WS

Místo vydání

Lviv

Místo konání akce

Lviv

Datum konání akce

11. 11. 2019

Typ akce podle státní příslušnosti

WRD - Celosvětová akce

Kód UT WoS článku

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