A unified 35-gene signature for both subtype classification and survival prediction in diffuse large B-cell lymphomas.

Cancer subtype classification and survival prediction both relate directly to patients' specific treatment plans, making them fundamental medical issues. Although the two factors are interrelated learning problems, most studies tackle each separately. In this paper, expression levels of genes a...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Yu-Dong Cai, Tao Huang, Kai-Yan Feng, Lele Hu, Lu Xie
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2010
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/5aae0c34f7df49e284a7ddbb653f3ac5
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:5aae0c34f7df49e284a7ddbb653f3ac5
record_format	dspace
spelling	oai:doaj.org-article:5aae0c34f7df49e284a7ddbb653f3ac52021-11-18T06:35:14ZA unified 35-gene signature for both subtype classification and survival prediction in diffuse large B-cell lymphomas.1932-620310.1371/journal.pone.0012726https://doaj.org/article/5aae0c34f7df49e284a7ddbb653f3ac52010-09-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/20856936/?tool=EBIhttps://doaj.org/toc/1932-6203Cancer subtype classification and survival prediction both relate directly to patients' specific treatment plans, making them fundamental medical issues. Although the two factors are interrelated learning problems, most studies tackle each separately. In this paper, expression levels of genes are used for both cancer subtype classification and survival prediction. We considered 350 diffuse large B-cell lymphoma (DLBCL) subjects, taken from four groups of patients (activated B-cell-like subtype dead, activated B-cell-like subtype alive, germinal center B-cell-like subtype dead, and germinal center B-cell-like subtype alive). As classification features, we used 11,271 gene expression levels of each subject. The features were first ranked by mRMR (Maximum Relevance Minimum Redundancy) principle and further selected by IFS (Incremental Feature Selection) procedure. Thirty-five gene signatures were selected after the IFS procedure, and the patients were divided into the above mentioned four groups. These four groups were combined in different ways for subtype prediction and survival prediction, specifically, the activated versus the germinal center and the alive versus the dead. Subtype prediction accuracy of the 35-gene signature was 98.6%. We calculated cumulative survival time of high-risk group and low-risk groups by the Kaplan-Meier method. The log-rank test p-value was 5.98e-08. Our methodology provides a way to study subtype classification and survival prediction simultaneously. Our results suggest that for some diseases, especially cancer, subtype classification may be used to predict survival, and, conversely, survival prediction features may shed light on subtype features.Yu-Dong CaiTao HuangKai-Yan FengLele HuLu XiePublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 5, Iss 9, p e12726 (2010)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Yu-Dong Cai Tao Huang Kai-Yan Feng Lele Hu Lu Xie A unified 35-gene signature for both subtype classification and survival prediction in diffuse large B-cell lymphomas.
description	Cancer subtype classification and survival prediction both relate directly to patients' specific treatment plans, making them fundamental medical issues. Although the two factors are interrelated learning problems, most studies tackle each separately. In this paper, expression levels of genes are used for both cancer subtype classification and survival prediction. We considered 350 diffuse large B-cell lymphoma (DLBCL) subjects, taken from four groups of patients (activated B-cell-like subtype dead, activated B-cell-like subtype alive, germinal center B-cell-like subtype dead, and germinal center B-cell-like subtype alive). As classification features, we used 11,271 gene expression levels of each subject. The features were first ranked by mRMR (Maximum Relevance Minimum Redundancy) principle and further selected by IFS (Incremental Feature Selection) procedure. Thirty-five gene signatures were selected after the IFS procedure, and the patients were divided into the above mentioned four groups. These four groups were combined in different ways for subtype prediction and survival prediction, specifically, the activated versus the germinal center and the alive versus the dead. Subtype prediction accuracy of the 35-gene signature was 98.6%. We calculated cumulative survival time of high-risk group and low-risk groups by the Kaplan-Meier method. The log-rank test p-value was 5.98e-08. Our methodology provides a way to study subtype classification and survival prediction simultaneously. Our results suggest that for some diseases, especially cancer, subtype classification may be used to predict survival, and, conversely, survival prediction features may shed light on subtype features.
format	article
author	Yu-Dong Cai Tao Huang Kai-Yan Feng Lele Hu Lu Xie
author_facet	Yu-Dong Cai Tao Huang Kai-Yan Feng Lele Hu Lu Xie
author_sort	Yu-Dong Cai
title	A unified 35-gene signature for both subtype classification and survival prediction in diffuse large B-cell lymphomas.
title_short	A unified 35-gene signature for both subtype classification and survival prediction in diffuse large B-cell lymphomas.
title_full	A unified 35-gene signature for both subtype classification and survival prediction in diffuse large B-cell lymphomas.
title_fullStr	A unified 35-gene signature for both subtype classification and survival prediction in diffuse large B-cell lymphomas.
title_full_unstemmed	A unified 35-gene signature for both subtype classification and survival prediction in diffuse large B-cell lymphomas.
title_sort	unified 35-gene signature for both subtype classification and survival prediction in diffuse large b-cell lymphomas.
publisher	Public Library of Science (PLoS)
publishDate	2010
url	https://doaj.org/article/5aae0c34f7df49e284a7ddbb653f3ac5
work_keys_str_mv	AT yudongcai aunified35genesignatureforbothsubtypeclassificationandsurvivalpredictionindiffuselargebcelllymphomas AT taohuang aunified35genesignatureforbothsubtypeclassificationandsurvivalpredictionindiffuselargebcelllymphomas AT kaiyanfeng aunified35genesignatureforbothsubtypeclassificationandsurvivalpredictionindiffuselargebcelllymphomas AT lelehu aunified35genesignatureforbothsubtypeclassificationandsurvivalpredictionindiffuselargebcelllymphomas AT luxie aunified35genesignatureforbothsubtypeclassificationandsurvivalpredictionindiffuselargebcelllymphomas AT yudongcai unified35genesignatureforbothsubtypeclassificationandsurvivalpredictionindiffuselargebcelllymphomas AT taohuang unified35genesignatureforbothsubtypeclassificationandsurvivalpredictionindiffuselargebcelllymphomas AT kaiyanfeng unified35genesignatureforbothsubtypeclassificationandsurvivalpredictionindiffuselargebcelllymphomas AT lelehu unified35genesignatureforbothsubtypeclassificationandsurvivalpredictionindiffuselargebcelllymphomas AT luxie unified35genesignatureforbothsubtypeclassificationandsurvivalpredictionindiffuselargebcelllymphomas
_version_	1718424480336838656

A unified 35-gene signature for both subtype classification and survival prediction in diffuse large B-cell lymphomas.

Ejemplares similares