| Investigation of transcription factors (TFs) and their downstream regulated genes (targets) is an important issue in post genome era, which can provide brand new vision for some vital biological process. However information of TFs and their targets in mammalian is far from sufficient. Here,we developed an integrated transcription factor platform (ITFP), which included abundant TFs and targets message of mammalian. |
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| In our work, support vector machine (SVM) algorithm combined with error-correcting output coding (ECOC) algorithm was utilized to identify and classify transcription factor from protein sequence of Human, Mouse and Rat. For transcription factor targets, a reverse engineering method named ARACNE was used to derive potential interaction pairs between transcription factor and downstream regulated gene from Human, Mouse and Rat gene expression profile data. Detailed information of gene expression profile data can be found in help page. Moreover, all data provided by the platform is free for non-commercial users and can be downloaded through links on help page. |
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| You can get release history of ITFP here. For current release, statistic information about TFs and interaction pairs between TF and target was depicted in following table: |
| Species |
Transcription Factors |
TF and Target Pairs |
TFs with Target Information |
| Homo Sapiens |
4105 |
69496 |
1974 |
| Mus musculus |
3134 |
37040 |
1340 |
| Rattus norvegicus |
1114 |
18055 |
541 |
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| Reference |
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The combination approach of SVM and ECOC for powerful identification and classification of transcription factor, Guangyong Zheng, Ziliang Qian, Qing Yang, Chaochun Wei, Lu Xie, Yangyong Zhu and Yixue Li, BMC Bioinformatics 2008, 9:282.
ITFP: an integrated platform of mammalian transcription factors, Guangyong Zheng, Kang Tu, Qing Yang, Yun Xiong, Chaochun Wei, Lu Xie, Yangyong Zhu, and Yixue Li, Bioinformatics 2008 24(20):2416-2417.
ARACNE: an algorithm for the reconstruction of gene regulatory networks in a mammalian cellular context, Margolin, A.A., Nemenman, I., Basso, K., Wiggins, C., Stolovitzky, G., Dalla Favera, R. and Califano, A. BMC Bioinformatics 2006, 7 Suppl 1, S7.
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