GENT2: an updated gene expression database for normal and tumor tissues

被引：291
|
作者：
Park, Seung-Jin [1 ,2 ]
Yoon, Byoung-Ha [1 ,2 ]
Kim, Seon-Kyu [3 ]
Kim, Seon-Young [1 ,2 ]
机构：
[1] KRIBB, Genome Editing Res Ctr, Daejeon 34141, South Korea
[2] UST, Dept Biosci, Daejeon 34113, South Korea
[3] KRIBB, Personalized Genom Med Res Ctr, Daejeon 34141, South Korea
来源：
BMC MEDICAL GENOMICS | 2019年 / 12卷 / Suppl 5期
基金：
新加坡国家研究基金会;
关键词：
Tissue and cell line wide gene expression profiling; Cancer subtype profiling; Survival analysis; Meta-survival analysis; Large scale microarray web-database; CANCER;
D O I：
10.1186/s12920-019-0514-7
中图分类号：
Q3 [遗传学];
学科分类号：
071007 ; 090102 ;
摘要：
BackgroundGene Expression database of Normal and Tumor tissues 2 (GENT2) is an updated version of GENT, which has provided a user-friendly search platform for gene expression patterns across different normal and tumor tissues compiled from public gene expression data sets.ResultsWe refactored GENT2 with recent technologies such as Apache Lucene indexing for fast search and Google Web Toolkit (GWT) framework for a user-friendly web interface. Now, GENT2 contains more than 68,000 samples and has several new useful functions. First, GENT2 now provides gene expression across 72 different tissues compared to 57 in GENT. Second, with increasing importance of tumor subtypes, GENT2 provides an option to study the differential expression and its prognostic significance based on tumor subtypes. Third, whenever available, GENT2 provides prognostic information of a gene of interest. Fourth, GENT2 provides a meta-analysis of survival information to provide users more reliable prognostic value of a gene of interest.ConclusionsIn conclusion, with these significant improvements, GENT2 will continue to be a useful tool to a wide range of researchers. GENT2 is freely available at http://gent2.appex.kr.
引用
收藏
页数：8
相关论文
共 50 条
  • [21] Cancer gene expression database (CGED): a database for gene expression profiling with accompanying clinical information of human cancer tissues
    Kato, K
    Yamashita, R
    Matoba, R
    Monden, M
    Noguchi, S
    Takagi, T
    Nakai, K
    NUCLEIC ACIDS RESEARCH, 2005, 33 : D533 - D536
  • [22] Expression of the PKD2 gene product in normal and PKD tissues.
    Cai, Y
    Mochizuki, T
    Wu, GQ
    Torres, V
    Somlo, S
    JOURNAL OF THE AMERICAN SOCIETY OF NEPHROLOGY, 1996, 7 (09): : A1719 - A1719
  • [23] Mining gene expression database for primary human disease tissues
    Campen, Andrew
    Xia, Yuni
    Rigsby, Dan
    Guo, Ying
    Feng, Xingdong
    Su, Eric W.
    Palakal, Mathew
    Li, Shuyu
    2008 IEEE 24TH INTERNATIONAL CONFERENCE ON DATA ENGINEERING, VOLS 1-3, 2008, : 1604 - +
  • [24] The claudin gene family: expression in normal and neoplastic tissues
    Kyle J Hewitt
    Rachana Agarwal
    Patrice J Morin
    BMC Cancer, 6
  • [25] Haymaker gene expression in malignant and normal gynecologic tissues
    Borowsky, Mark E.
    Das, Ballabh
    Axiotis, Constantine A.
    Malka, Edmond S.
    Abulafia, Ovadia
    Norin, Allen J.
    JOURNAL OF HISTOCHEMISTRY & CYTOCHEMISTRY, 2006, 54 (07) : 753 - 761
  • [26] The claudin gene family: expression in normal and neoplastic tissues
    Hewitt, Kyle J.
    Agarwal, Rachana
    Morin, Patrice J.
    BMC CANCER, 2006, 6 (1)
  • [27] EXPRESSION OF HUMAN GASTRIN GENE IN NORMAL AND GASTRINOMA TISSUES
    KARIYA, Y
    KATO, K
    HAYASHIZAKI, Y
    HIMENO, S
    TARUI, S
    MATSUBARA, K
    GENE, 1986, 50 (1-3) : 345 - 352
  • [28] Computational Identification of Tumor Suppressor Genes Based on Gene Expression Profiles in Normal and Cancerous Gastrointestinal Tissues
    Sun, Qingrong
    Uddin, Md Nazim
    Li, Mengyuan
    Wang, Xiaosheng
    Lai, Maode
    JOURNAL OF ONCOLOGY, 2020, 2020
  • [29] A graph-theoretic technique for classification of normal and tumor tissues using gene expression microarray data
    Kim, Saejoon
    2007 ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY, VOLS 1-16, 2007, : 4621 - 4624
  • [30] Expression and subcellular localization of RAGE in normal mouse and tumor tissues
    Todorova, Jordana Todorova
    Ugrinova, Iva
    Osmanov, Taner Fikretov
    Pasheva, Evdokia Alexandrova
    CURRENT OPINION IN BIOTECHNOLOGY, 2013, 24 : S103 - S103
12345