Debate and discussion of any biological questions not pertaining to a particular topic.
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We would like to introduce a new tool called “CU-DREAM” for intersecting two microarray datasets. CU-DREAM compares the datasets of two microarray experiments (reported in http://www.ncbi.nlm.nih.gov/geo) with different conditions to determine if the two conditions share genome wide gene regulation pathway. CU-DREAM is an effective tool for the pre-screening of drugs, substances or environmental insults or the identification of the genetic changes that are associated with pathological conditions. For more information please find the CU-DREAM article at http://abm.digitaljournals.org/index.ph ... ew/589/431
CU-DREAM(X) can intersect a GSE dataset with “a gene set.” This program is designed to find the association between up or down regulation of certain GSE microarray experiments and a group of certain genes. Example of CU-DREAM(X) comparing gene expression and gene containing intragenic LINE-1 (long interspersed nuclear element-1) can be found at http://www.plosone.org/article/info:doi ... ne.0017934
All materials (executable file, user manual, examples) can be downloaded at the project homepage: http://pioneer.netserv.chula.ac.th/~achatcha/cu-dream
Please reference CU-DREAM and CU-DREAM(X) as follow.
Aporntewan C, Mutirangura A. Connection Up- and Down-Regulation Expression Analysis of Microarrays (CU-DREAM): A physiogenomic discovery tool, Asian Biomedicine, Vol. 5 No. 2, pp. 265-270, April 2011. DOI: 10.5372/1905-7415.0502.034.
Aporntewan C, Phokaew C, Piriyapongsa J, Ngamphiw C, Ittiwut C, Tongsima S, Mutirangura A (2011) Hypomethylation of Intragenic LINE-1 Represses Transcription in Cancer Cells through AGO2. PLoS One 6 (3):e17934. doi:10.1371/journal.pone.0017934
Prof. Apiwat Mutirangura, Center for Excellence in Molecular Genetics of Cancer and Human Diseases, Department of Anatomy, Faculty of Medicine, Chulalongkorn University, Bangkok 10330, Thailand.
Asst.Prof. Chatchawit Aporntewan, Department of Mathematics, Faculty of Science, Chulalongkorn University, Bangkok 10330, Thailand.
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