Table 2.
Summary of identified YY1-binding loci, predicted YY1 and cofactor binding motifs from ChIP based datasets
| No | Data sources | Species | Methods | Cell lines | Number of YY1-binding loci | Number of predicted YY1 motifs | % of loci with YY1 motifs | Number of Cofactors | Number of predicted cofactor motifs |
|---|---|---|---|---|---|---|---|---|---|
| 1 | ENCODE/HAIB | Human | ChIP-seq | A549 | 5855 | 8796 | 48.8% | 9 | 10 022 |
| 2 | ENCODE/HAIB | Human | ChIP-seq | GM12878 | 11 964 | 11 026 | 36.1% | 11 | 9813 |
| 3 | ENCODE/Stanford/Yale/USC/Harvard | Human | ChIP-seq | GM12878 | 103 | 527 | 91.3% | 6 | 261 |
| 4 | ENCODE/HAIB | Human | ChIP-seq | GM12891 | 3831 | 8150 | 64.4% | 7 | 5474 |
| 5 | ENCODE/HAIB | Human | ChIP-seq | GM12892 | 3967 | 9115 | 69.3% | 7 | 6808 |
| 6 | ENCODE/HAIB | Human | ChIP-seq | H1-hESC | 5416 | 13 143 | 70.4% | 13 | 9453 |
| 7 | ENCODE/HAIB | Human | ChIP-seq | HCT-116 | 9054 | 10 181 | 38.6% | 7 | 6819 |
| 8 | ENCODE/HAIB | Human | ChIP-seq | HepG2 | 4761 | 6498 | 47.4% | 10 | 8320 |
| 9 | ENCODE/HAIB | Human | ChIP-seq | K562 | 17 916 | 29 497 | 51.7% | 9 | 16 296 |
| 10 | ENCODE/HAIB | Human | ChIP-seq | SK-N-SH_RA | 4383 | 9043 | 64.4% | 8 | 5949 |
| 11 | ENCODE/Stanford/Yale/USC/Harvard | Human | ChIP-seq | NT2-D1 | 4505 | 9577 | 63.7% | 3 | 4217 |
| 12 | Cuddapah et al. Genomic profiling of HMGN1 reveals an association with chromatin at regulatory regions. Mol. Cell Biol. 2010 | Human | ChIP-seq | CD4+ T cells | 4280 | 5940 | 42.5% | 9 | 4441 |
| 13 | Hernandez/Herr Lab, University of Lausanne, Switzerland, 2012, unpublished. | Human | ChIP-seq | HeLa-S cells | 269 | 1164 | 88.8% | 8 | 558 |
| 14 | Li et al. YY1 regulates melanocyte development and function by cooperating with MITF. PLoS Genet. 2012. | Human | ChIP-seq | MALME-3M, Melanocyte | 7713 | 9337 | 54.9% | 14 | 22 701 |
| 15 | Gebhard et al. General transcription factor binding at CpG islands in normal cells correlates with resistance to De novo DNA methylation in cancer cells. Cancer Res. 2010. | Human | ChIP-on-chip | Mynocytes (CD14+) | 4472 | 7119 | 47.5% | 7 | 8801 |
| 16 | Mendenhall et al. GC-rich sequence elements recruit PRC2 in mammalian ES cells. PLoS Genet. 2010. | Mouse | ChIP-seq | Murine ES cells | 1093 | 4994 | 83.3% | 10 | 2580 |
| 17 | Vella et al. Yin Yang 1 extends the Myc-related transcription factors network in embryonic stem cells. Nucleic Acids Res. 2012. | Mouse | ChIP-seq | Murine ES cells | 2732 | 13 051 | 83.5% | 11 | 8246 |