| Ament et al. [7] |
Modeling of transcriptional network controlling mouse and human striatum as well as exploring the role of 48 TF-TF interactions in mouse models of Huntington’s disease |
RNA-seq and microarray gene expression data |
| Sonawane et al. [5] |
Investigation of cooperative TFs in regulatory networks for 38 human tissues |
RNA-seq data from the Genotype-Tissue Expression project |
| Zeidler et al. [8] |
Exploration of interacting TFs to understand the gene regulatory mechanisms during heart development |
RNA-seq time series dataset including five time points |
| Song et al. [9] |
Understanding and explanation of the role of 21 environmental stress related TF and their cooperativeness in the comprehensive regulatory network of Arabidopsis thaliana
|
Chip-seq and RNA-seq data |
| Rhee et al. [10] |
Genome-wide analysis performed for Drosophila melanogaster in order to determine crucial biological functions of TF cooperations in tissue specification |
RNA-seq data of 29 tissues and developmental time points from the modENCODE project |
| Nandi et al. [11] |
Modeling of non-random functional dimers between the transcription factor MyoD and some muscle specific factors in the promoters of human genes |
Human promoter sequences from the DBTSSs [20] |
| Laresgoit et al. [12] |
Explanation of the essential role of the cooperation between transcription factors E2F2 and CREB for the regulation of transcriptional activity of cell cycle genes in mice |
Data from ChIP-chip experiments |
| Myšičková et al. [13] |
Systematic large-scale analysis for the characterization of tissue-specific TF interactions of 22 human tissues |
Expressed Sequence Tags (EST) data |
| Girgis et al. [21] |
Prediction of cis-regulatory motifs in 72 human tissues and identification of related TFs |
Expression data from GNF Atlas |
| Hu et al. [15] |
Systematic large-scale analysis for the identification of tissue-specific TF interactions for 79 human tissues |
Gene expression data from GNF Atlas2 gene expression database (gnfAtlas2) [22] |
| Yu et al. [14] |
Systematic large-scale analysis for the characterization of tissue-specific combinatorial gene regulation based on TF interactions for 30 human tissues |
Tissue-specific genes from NCBI EST database |
