MeInfoText: associated gene methylation and cancer information from text mining

BMC Bioinformatics
Yu-Ching FangHsueh-Fen Juan

Abstract

DNA methylation is an important epigenetic modification of the genome. Abnormal DNA methylation may result in silencing of tumor suppressor genes and is common in a variety of human cancer cells. As more epigenetics research is published electronically, it is desirable to extract relevant information from biological literature. To facilitate epigenetics research, we have developed a database called MeInfoText to provide gene methylation information from text mining. MeInfoText presents comprehensive association information about gene methylation and cancer, the profile of gene methylation among human cancer types and the gene methylation profile of a specific cancer type, based on association mining from large amounts of literature. In addition, MeInfoText offers integrated protein-protein interaction and biological pathway information collected from the Internet. MeInfoText also provides pathway cluster information regarding to a set of genes which may contribute the development of cancer due to aberrant methylation. The extracted evidence with highlighted keywords and the gene names identified from each methylation-related abstract is also retrieved. The database is now available at http://mit.lifescience.ntu.edu.tw/. MeInfoT...Continue Reading

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Citations

Mar 4, 2011·Journal of Agricultural and Food Chemistry·Daniel SánchezLudmila Tučková
Mar 21, 2012·Pediatric Research·Pedro M Pimentel-CoelhoRosalia Mendez-Otero
Nov 7, 2009·Nucleic Acids Research·Yan ZhangXia Li
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Dec 3, 2011·Nucleic Acids Research·Jie LvYan Zhang
Oct 16, 2008·BMC Complementary and Alternative Medicine·Yu-Ching FangHsueh-Fen Juan
Dec 15, 2011·Journal of Biomedical Semantics·Tomoko OhtaJun'ichi Tsujii
May 16, 2014·Gastroenterology Research and Practice·Christina MichailidiRafael Guerrero-Preston
Jan 2, 2010·Computers in Biology and Medicine·Jie LvYan Zhang
Nov 20, 2012·Journal of Biomedical Informatics·Fei ZhuBairong Shen
Jul 11, 2014·International Journal of Medical Informatics·Irena SpasićGoran Nenadić
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Sep 30, 2016·PloS One·Zhan YeMax M He
Sep 7, 2017·Healthcare Informatics Research·Vinaitheerthan Renganathan
Mar 8, 2021·Genomics·Nasibeh ChenaraniJavad Zahiri
May 3, 2012·Cold Spring Harbor Protocols·Simon J FurneyNuria Lopez-Bigas

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Methods Mentioned

BETA
acetylation

Software Mentioned

HPRD
MySQL
perl
Plucene
Plucene module
MeInfoText
Firefox
IntAct
Linux
Lucene API

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