scDamID, EpiDamID and Lamina Associated Domains (Jop Kind)

<p>In this episode of the Epigenetics Podcast, we caught up with Jop Kind from Hubrecht Institute to talk about his work on single cell DamID, EpiDamID, and Lamina Associated Domains (LADs).</p> <p>Jop Kind started out developing single cell DamID (scDamID), based on the <a href='https://www.nature.com/articles/nprot.2007.148'>DamID</a> technique. First, this technique was adapted to a microscopic readout which enabled them to follow the localisation of chromatin domains after cell division. Next, the lab expanded this technique into the NGS space and created genome-wide maps of nuclear lamina Interactions in single human cells. Since LADs are in a heterochromatic chromatin context, the lab expanded scDamID into the epigenetic space. They first combined it with a transcriptional readout.  Later-on they developed EpiDamID, a method to target a diverse set of chromatin types by taking advantage of the binding specificities of single-chain variable fragment antibodies, engineered chromatin reader domains, and endogenous chromatin-binding proteins.</p> <p class="md-end-block md-p"> </p> <p class="md-end-block md-p">References</p> <ul class="ul-list"><li class="md-list-item"> <p class="md-end-block md-p">Kind, J., Pagie, L., Ortabozkoyun, H., Boyle, S., de Vries, S. S., Janssen, H., Amendola, M., Nolen, L. D., Bickmore, W. A., & van Steensel, B. (2013). Single-Cell Dynamics of Genome-Nuclear Lamina Interactions. Cell, 153(1), 178–192. <a href='https://doi.org/10.1016/j.cell.2013.02.028'>https://doi.org/10.1016/j.cell.2013.02.028</a></p> </li> <li class="md-list-item"> <p class="md-end-block md-p">Kind, J., Pagie, L., de Vries, S. S., Nahidiazar, L., Dey, S. S., Bienko, M., Zhan, Y., Lajoie, B., de Graaf, C. A., Amendola, M., Fudenberg, G., Imakaev, M., Mirny, L. A., Jalink, K., Dekker, J., van Oudenaarden, A., & van Steensel, B. (2015). Genome-wide Maps of Nuclear Lamina Interactions in Single Human Cells. Cell, 163(1), 134–147. <a href='https://doi.org/10.1016/j.cell.2015.08.040'>https://doi.org/10.1016/j.cell.2015.0