BASE is a method to infer transcription factor activities by integrating microarray expression data and TF-gene binding (e.g. ChIP-chip) data.
WinBase: Program executable in Microsoft Windows system. The program is coded in C++ and complied with Visual Studio 6.0.
UnixBase: Program executable in UNIX system.
Readme: Description about format of input and output files for the above program.
Example microarrat data: An example microarray data which measured relative expression levels of yeast genes across cell cycle.
Exampe TF-gene affinity data: compiled TF-gene binding affinity data derived from ChIP-chip data from Richard Young's Lab.
run.bat: An example to show how to run the program.
 Inferring activity changes of transcription factors by binding association with sorted expression profiles. Cheng C, Yan X, Sun F, Li LM. BMC Bioinformatics. 2007 Nov 16;8:452. [Pubmed]
 Systematic identification of cell cycle regulated transcription factors from microarray time series data. Cheng C, Li LM. BMC Genomics. 2008 Mar 3;9:116. [Pubmed]
 Systematic identification of transcription factors associated with patient survival in cancers. Cheng C, Li LM, Alves P, Gerstein M. BMC Genomics. 2009 May 15;10:225. [Pubmed]