Novel Gene Sets Improve Set-level Classification of Prokaryotic Gene Expression Data

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F68407700%3A21230%2F15%3A00233472" target="_blank" >RIV/68407700:21230/15:00233472 - isvavai.cz</a>

Výsledek na webu

<a href="http://www.biomedcentral.com/1471-2105/16/348" target="_blank" >http://www.biomedcentral.com/1471-2105/16/348</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1186/s12859-015-0786-7" target="_blank" >10.1186/s12859-015-0786-7</a>

Jazyk výsledku

angličtina

Název v původním jazyce

Novel Gene Sets Improve Set-level Classification of Prokaryotic Gene Expression Data

Popis výsledku v původním jazyce

Set-level classification of gene expression data has received significant attention recently. In this setting, high-dimensional vectors of features corresponding to genes are converted into lower-dimensional vectors of features corresponding to biologically interpretable gene sets. The dimensionality reduction brings the promise of a decreased risk of overfitting, potentially resulting in improved accuracy of the learned classifiers. However, recent empirical research has not confirmed this expectation.Here we hypothesize that the reported unfavorable classification results in the set-level framework were due to the adoption of unsuitable gene sets defined typically on the basis of the Gene ontology and the KEGG database of metabolic networks. We explore an alternative approach to defining gene sets, based on regulatory interactions, which we expect to collect genes with more correlated expression. We hypothesize that such more correlated gene sets will enable to learn more accurate c

Název v anglickém jazyce

Novel Gene Sets Improve Set-level Classification of Prokaryotic Gene Expression Data

Popis výsledku anglicky

Set-level classification of gene expression data has received significant attention recently. In this setting, high-dimensional vectors of features corresponding to genes are converted into lower-dimensional vectors of features corresponding to biologically interpretable gene sets. The dimensionality reduction brings the promise of a decreased risk of overfitting, potentially resulting in improved accuracy of the learned classifiers. However, recent empirical research has not confirmed this expectation.Here we hypothesize that the reported unfavorable classification results in the set-level framework were due to the adoption of unsuitable gene sets defined typically on the basis of the Gene ontology and the KEGG database of metabolic networks. We explore an alternative approach to defining gene sets, based on regulatory interactions, which we expect to collect genes with more correlated expression. We hypothesize that such more correlated gene sets will enable to learn more accurate c

Druh

J_x - Nezařazeno - Článek v odborném periodiku (Jimp, Jsc a Jost)

CEP obor

JC - Počítačový hardware a software

OECD FORD obor

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Projekt

<a href="/cs/project/GAP202%2F12%2F2032" target="_blank" >GAP202/12/2032: Predikce vlastností bílkovin prostorovým statistickým relačním strojovým učením</a><br>

Návaznosti

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Rok uplatnění

2015

Kód důvěrnosti údajů

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

Název periodika

BMC Bioinformatics

ISSN

1471-2105

e-ISSN

—

Svazek periodika

16

Číslo periodika v rámci svazku

1

Stát vydavatele periodika

GB - Spojené království Velké Británie a Severního Irska

Počet stran výsledku

18

Strana od-do

—

Kód UT WoS článku

000363616400004

EID výsledku v databázi Scopus

2-s2.0-84945582665