A Random Walk-Based Method to Identify Candidate Genes Associated With Lymphoma

Lymphoma is a serious type of cancer, especially for adolescents and elder adults, although this malignancy is quite rare compared with other types of cancer. The cause of this malignancy remains ambiguous. Genetic factor is deemed to be highly associated with the initiation and progression of lymph...

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Autores principales:	Minjie Sheng, Haiying Cai, Qin Yang, Jing Li, Jian Zhang, Lihua Liu
Formato:	article
Lenguaje:	EN
Publicado:	Frontiers Media S.A. 2021
Materias:	lymphoma random walk with restart algorithm protein-protein interaction network enrichment theory permutation test Genetics QH426-470
Acceso en línea:	https://doaj.org/article/91f6a129702b4dd98dfd7811578985f5
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spelling	oai:doaj.org-article:91f6a129702b4dd98dfd7811578985f52021-12-01T01:20:39ZA Random Walk-Based Method to Identify Candidate Genes Associated With Lymphoma1664-802110.3389/fgene.2021.792754https://doaj.org/article/91f6a129702b4dd98dfd7811578985f52021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fgene.2021.792754/fullhttps://doaj.org/toc/1664-8021Lymphoma is a serious type of cancer, especially for adolescents and elder adults, although this malignancy is quite rare compared with other types of cancer. The cause of this malignancy remains ambiguous. Genetic factor is deemed to be highly associated with the initiation and progression of lymphoma, and several genes have been related to this disease. Determining the pathogeny of lymphoma by identifying the related genes is important. In this study, we presented a random walk-based method to infer the novel lymphoma-associated genes. From the reported 1,458 lymphoma-associated genes and protein–protein interaction network, raw candidate genes were mined by using the random walk with restart algorithm. The determined raw genes were further filtered by using three screening tests (i.e., permutation, linkage, and enrichment tests). These tests could control false-positive genes and screen out essential candidate genes with strong linkages to validate the lymphoma-associated genes. A total of 108 inferred genes were obtained. Analytical results indicated that some inferred genes, such as RAC3, TEC, IRAK2/3/4, PRKCE, SMAD3, BLK, TXK, PRKCQ, were associated with the initiation and progression of lymphoma.Minjie ShengHaiying CaiQin YangJing LiJian ZhangJian ZhangJian ZhangJian ZhangJian ZhangLihua LiuFrontiers Media S.A.articlelymphomarandom walk with restart algorithmprotein-protein interaction networkenrichment theorypermutation testGeneticsQH426-470ENFrontiers in Genetics, Vol 12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	lymphoma random walk with restart algorithm protein-protein interaction network enrichment theory permutation test Genetics QH426-470
spellingShingle	lymphoma random walk with restart algorithm protein-protein interaction network enrichment theory permutation test Genetics QH426-470 Minjie Sheng Haiying Cai Qin Yang Jing Li Jian Zhang Jian Zhang Jian Zhang Jian Zhang Jian Zhang Lihua Liu A Random Walk-Based Method to Identify Candidate Genes Associated With Lymphoma
description	Lymphoma is a serious type of cancer, especially for adolescents and elder adults, although this malignancy is quite rare compared with other types of cancer. The cause of this malignancy remains ambiguous. Genetic factor is deemed to be highly associated with the initiation and progression of lymphoma, and several genes have been related to this disease. Determining the pathogeny of lymphoma by identifying the related genes is important. In this study, we presented a random walk-based method to infer the novel lymphoma-associated genes. From the reported 1,458 lymphoma-associated genes and protein–protein interaction network, raw candidate genes were mined by using the random walk with restart algorithm. The determined raw genes were further filtered by using three screening tests (i.e., permutation, linkage, and enrichment tests). These tests could control false-positive genes and screen out essential candidate genes with strong linkages to validate the lymphoma-associated genes. A total of 108 inferred genes were obtained. Analytical results indicated that some inferred genes, such as RAC3, TEC, IRAK2/3/4, PRKCE, SMAD3, BLK, TXK, PRKCQ, were associated with the initiation and progression of lymphoma.
format	article
author	Minjie Sheng Haiying Cai Qin Yang Jing Li Jian Zhang Jian Zhang Jian Zhang Jian Zhang Jian Zhang Lihua Liu
author_facet	Minjie Sheng Haiying Cai Qin Yang Jing Li Jian Zhang Jian Zhang Jian Zhang Jian Zhang Jian Zhang Lihua Liu
author_sort	Minjie Sheng
title	A Random Walk-Based Method to Identify Candidate Genes Associated With Lymphoma
title_short	A Random Walk-Based Method to Identify Candidate Genes Associated With Lymphoma
title_full	A Random Walk-Based Method to Identify Candidate Genes Associated With Lymphoma
title_fullStr	A Random Walk-Based Method to Identify Candidate Genes Associated With Lymphoma
title_full_unstemmed	A Random Walk-Based Method to Identify Candidate Genes Associated With Lymphoma
title_sort	random walk-based method to identify candidate genes associated with lymphoma
publisher	Frontiers Media S.A.
publishDate	2021
url	https://doaj.org/article/91f6a129702b4dd98dfd7811578985f5
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A Random Walk-Based Method to Identify Candidate Genes Associated With Lymphoma

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