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After analyzing the database of NF-κB target genes (NF-κB Transcription Factors Database, Boston University)25 and the aberrant genes in our previous microarray data of CAFs11, 16 of interesting targets, including PAI-1 and MMP9 (Matrix metalloproteinase 9), which could induce cells growth and invasion26,27, were founded (Fig. 6a and Supplementary Table 3).
Experimentally derived transcription factor binding sites were retrieved from TRANSFAC database 6.0 [ 24], the eukaryotic transcription factors database.
Transcription factor binding sites from several classes of organisms were imported from the Transcription Factors Database (TFD) available publicly at.
We used the Virulence Factors Database (VFDB) [ 60] to assess the presence of virulence genes in the C. sordellii and C. difficile strains (Additional file 4: Table S4).
sativa Japonica), sorghum, maize, wheat (Triticum aestivum) and Arabidopsis thaliana transcription factors were downloaded from Peking University Plant Transcription factors Database [ 79] at http://planttfdb.cbi.pku.edu.cn/.
Links to DrugBank [ 14] and the Virulence Factors DataBase (VFDB) [ 15], as well as predictions of active-site residues are provided as well.
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Emission factor database.
Then, the bill of quantities (BOQ) and the engineering quota were used along with the established carbon footprint factor database (CFFD) to calculate the carbon footprints (CFs) of the buildings.
Fungal transcription factor database (FTFD, http://ftfd.snu.ac.kr/intro.php) (Park et al. 2008), known as currently the most complete A. niger transcription factor database, included 775 transcription factors of A. niger.
Rice TFs have been retrieved from the Plant Transcription Factor Database (http://plntfdb.bio.uni-potsdam.de/v3.0/) (Zhang et al. 2011).
The gene list of each pathway is referenced in the KEGG database (Kanehisa et al. [2012]), and Plant transcription factor database (Zhang et al. [2011]).
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