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Identification of Predictive Pathways for Non-Hodgkin Lymphoma Prognosis

Despite decades of intensive research, NHL (non-Hodgkin lymphoma) still remains poorly understood and is largely incurable. Recent molecular studies suggest that genomic variants measured with SNPs (single nucleotide polymorphisms) in genes may have additional predictive power for NHL prognosis beyo...

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Autores principales: Han, Xuesong, Li, Yang, Huang, Jian, Zhang, Yawei, Holford, Theodore, Lan, Qing, Rothman, Nathaniel, Zheng, Tongzhang, Kosorok, Michael R., Ma, Shuangge
Formato: Texto
Lenguaje:English
Publicado: Libertas Academica 2010
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3021201/
https://www.ncbi.nlm.nih.gov/pubmed/21245948
http://dx.doi.org/10.4137/CIN.S6315
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author Han, Xuesong
Li, Yang
Huang, Jian
Zhang, Yawei
Holford, Theodore
Lan, Qing
Rothman, Nathaniel
Zheng, Tongzhang
Kosorok, Michael R.
Ma, Shuangge
author_facet Han, Xuesong
Li, Yang
Huang, Jian
Zhang, Yawei
Holford, Theodore
Lan, Qing
Rothman, Nathaniel
Zheng, Tongzhang
Kosorok, Michael R.
Ma, Shuangge
author_sort Han, Xuesong
collection PubMed
description Despite decades of intensive research, NHL (non-Hodgkin lymphoma) still remains poorly understood and is largely incurable. Recent molecular studies suggest that genomic variants measured with SNPs (single nucleotide polymorphisms) in genes may have additional predictive power for NHL prognosis beyond clinical risk factors. We analyzed a genetic association study. The prognostic cohort consisted of 346 patients, among whom 138 had DLBCL (diffuse large B-cell lymphoma) and 101 had FL ( follicular lymphoma). For DLBCL, we analyzed 1229 SNPs which represented 122 KEGG pathways. For FL, we analyzed 1228 SNPs which represented 122 KEGG pathways. Unlike in existing studies, we targeted at identifying pathways with significant additional predictive power beyond clinical factors. In addition, we accounted for the joint effects of multiple SNPs within pathways, whereas some existing studies drew pathway-level conclusions based on separate analysis of individual SNPs. For DLBCL, we identified four pathways, which, combined with the clinical factors, had medians of the prediction logrank statistics as 2.535, 2.220, 2.094, 2.453, and 2.512, respectively. As a comparison, the clinical factors had a median of the prediction logrank statistics around 0.552. For FL, we identified two pathways, which, combined with the clinical factors, had medians of the prediction logrank statistics as 4.320 and 3.532, respectively. As a comparison, the clinical factors had a median of the prediction logrank statistics around 1.212. For NHL overall, we identified three pathways, which, combined with the clinical factors, had medians of the prediction logrank statistics as 5.722, 5.314, and 5.441, respective. As a comparison, the clinical factors had a median of the prediction logrank statistics around 4.411. The identified pathways have sound biological bases. In addition, they are different from those identified using existing approaches. They may provide further insights into the biological mechanisms underlying the prognosis of NHL.
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spelling pubmed-30212012011-01-18 Identification of Predictive Pathways for Non-Hodgkin Lymphoma Prognosis Han, Xuesong Li, Yang Huang, Jian Zhang, Yawei Holford, Theodore Lan, Qing Rothman, Nathaniel Zheng, Tongzhang Kosorok, Michael R. Ma, Shuangge Cancer Inform Methodology Despite decades of intensive research, NHL (non-Hodgkin lymphoma) still remains poorly understood and is largely incurable. Recent molecular studies suggest that genomic variants measured with SNPs (single nucleotide polymorphisms) in genes may have additional predictive power for NHL prognosis beyond clinical risk factors. We analyzed a genetic association study. The prognostic cohort consisted of 346 patients, among whom 138 had DLBCL (diffuse large B-cell lymphoma) and 101 had FL ( follicular lymphoma). For DLBCL, we analyzed 1229 SNPs which represented 122 KEGG pathways. For FL, we analyzed 1228 SNPs which represented 122 KEGG pathways. Unlike in existing studies, we targeted at identifying pathways with significant additional predictive power beyond clinical factors. In addition, we accounted for the joint effects of multiple SNPs within pathways, whereas some existing studies drew pathway-level conclusions based on separate analysis of individual SNPs. For DLBCL, we identified four pathways, which, combined with the clinical factors, had medians of the prediction logrank statistics as 2.535, 2.220, 2.094, 2.453, and 2.512, respectively. As a comparison, the clinical factors had a median of the prediction logrank statistics around 0.552. For FL, we identified two pathways, which, combined with the clinical factors, had medians of the prediction logrank statistics as 4.320 and 3.532, respectively. As a comparison, the clinical factors had a median of the prediction logrank statistics around 1.212. For NHL overall, we identified three pathways, which, combined with the clinical factors, had medians of the prediction logrank statistics as 5.722, 5.314, and 5.441, respective. As a comparison, the clinical factors had a median of the prediction logrank statistics around 4.411. The identified pathways have sound biological bases. In addition, they are different from those identified using existing approaches. They may provide further insights into the biological mechanisms underlying the prognosis of NHL. Libertas Academica 2010-12-07 /pmc/articles/PMC3021201/ /pubmed/21245948 http://dx.doi.org/10.4137/CIN.S6315 Text en © 2010 the author(s), publisher and licensee Libertas Academica Ltd. This is an open access article. Unrestricted non-commercial use is permitted provided the original work is properly cited.
spellingShingle Methodology
Han, Xuesong
Li, Yang
Huang, Jian
Zhang, Yawei
Holford, Theodore
Lan, Qing
Rothman, Nathaniel
Zheng, Tongzhang
Kosorok, Michael R.
Ma, Shuangge
Identification of Predictive Pathways for Non-Hodgkin Lymphoma Prognosis
title Identification of Predictive Pathways for Non-Hodgkin Lymphoma Prognosis
title_full Identification of Predictive Pathways for Non-Hodgkin Lymphoma Prognosis
title_fullStr Identification of Predictive Pathways for Non-Hodgkin Lymphoma Prognosis
title_full_unstemmed Identification of Predictive Pathways for Non-Hodgkin Lymphoma Prognosis
title_short Identification of Predictive Pathways for Non-Hodgkin Lymphoma Prognosis
title_sort identification of predictive pathways for non-hodgkin lymphoma prognosis
topic Methodology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3021201/
https://www.ncbi.nlm.nih.gov/pubmed/21245948
http://dx.doi.org/10.4137/CIN.S6315
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