Further reading for PRE/TRE sequence
Ringrose, L., Rehmsmeier, M., Dura, JM., Paro, R. (2003). Genome-wide prediction of Polycomb/Trithorax response elements in Drosophila melanogaster. Dev Cell. 5(5):759-71 (Pubmed abstract)
Hauenschild, A., Ringrose, L., Altmutter, C., Paro, R., Rehmsmeier, M. (2008). Evolutionary plasticity of Polycomb/Trithorax Response Elements in Drosophila species. PLoS Biol. 6(10):e261 (PubMed abstract)
Okulski, H., Druck, B., Bhalerao, S., Ringrose, L. (2011). Quantitative analysis of Polycomb Response Elements (PREs) at identical genomic locations distinguishes contributions of PRE sequence and genomic environment. Epigenetics Chromatin. 4:4 (PubMed abstract)
Rehmsmeier, M. (2017). Computational Identification of Polycomb/Trithorax Response Elements. Epigenetics and Systems Biology, pages 7-24, Elsevier. (Contents)
Bredesen BA., Rehmsmeier M. (2019). DNA sequence models of genome-wide Drosophila melanogaster Polycomb binding sites improve generalization to independent Polycomb Response Elements. Nucleic Acids Res. (PubMed abstract)
Further reading for non coding RNA at pre/TREs
Hekimoglu-Balkan, B., Aszodi, A., Heinen, R., Jaritz, M., Ringrose, L. (2012). Intergenic Polycomb target sites are dynamically marked by non-coding transcription during lineage commitment. RNA Biol. 9(3):314-25 (PubMed abstract)
Herzog, VA., Lempradl, A., Trupke, J., Okulski, H., Altmutter, C., Ruge, F., Boidol, B., Kubicek, S., Schmauss, G., Aumayr, K., Ruf, M., Pospisilik, A., Dimond, A., Senergin, HB., Vargas, ML., Simon, JA., Ringrose, L. (2014). A strand-specific switch in noncoding transcription switches the function of a Polycomb/Trithorax response element. Nat Genet. 46(9):973-81 (PubMed abstract)
Ringrose, L., (2017). Noncoding RNAs in Polycomb and Trithorax Regulation: A Quantitative Perspective. Annu Rev Genet 51:385-411 (Abstract)