Erez Lieberman Aiden's guest appearances

Erez Lieberman Aiden

Finding Genius Podcast

Epigenetics Podcast

Yael David

Bill Barhydt

Whitney Johnson

Alex Mashinsky

Ross Ulbricht

Lyn Ulbricht

Jameson Lopp

Marco Peereboom

Megan Ramos

Danny Flood

Abel James

Nir Eyal

Perry Marshall

Scott Young

Ben Goertzel

OwlTail

In this episode of the Epigenetics Podcast, we caught up with Erez Lieberman Aiden, Ph.D. from Baylor College of Medicine and Rice University in Houston to talk about his work on developing Hi-C and investigating the three-dimensional structure of the genome. He was the first author on a publication in the journal Science titled "Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome" which was the paper that first introduced the Hi-C method in 2009 and he has continued studying the structure of the chromosome ever since.  Erez Lieberman Aiden is currently an Assistant Professor in both the Department of Genetics at the Baylor College of Medicine, where he directs the newly-established Center for Genome Architecture, and in the Department of Computer Science and Computational and Applied Mathematics at Rice University across the street. In this interview, we discuss the road that Erez Lieberman Aiden went down to optimize the Hi-C protocol, the hurdles he had to overcome, and how Hi-C made it possible to probe the three-dimensional structure of the genome.  References  Erez Lieberman-Aiden, Nynke L. van Berkum, … Job Dekker (2009) Comprehensive mapping of long-range interactions reveals folding principles of the human genome (Science (New York, N.Y.)) DOI: 10.1126/science.1181369  Suhas S. P. Rao, Miriam H. Huntley, … Erez Lieberman Aiden (2014) A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping (Cell) DOI: 10.1016/j.cell.2014.11.021  Adrian L. Sanborn, Suhas S. P. Rao, … Erez Lieberman Aiden (2015) Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes (Proceedings of the National Academy of Sciences) DOI: 10.1073/pnas.1518552112  Suhas S.P. Rao, Su-Chen Huang, … Erez Lieberman Aiden (2017) Cohesin Loss Eliminates All Loop Domains (Cell) DOI: 10.1016/j.cell.2017.09.026  Contact   Active Motif on Twitter Epigenetics Podcast on Twitter Active Motif on Linked-In Active Motif on Facebook eMail: podcast@activemotif.com

In this episode of the Epigenetics Podcast, we caught up with Erez Lieberman Aiden, Ph.D. from Baylor College of Medicine and Rice University in Houston to talk about his work on developing Hi-C and investigating the three-dimensional structure of the genome. He was the first author on a publication in the journal Science titled "Comprehensive Mapping of Long-Range Interactions Reveals Folding Principles of the Human Genome" which was the paper that first introduced the Hi-C method in 2009 and he has continued studying the structure of the chromosome ever since. Erez Lieberman Aiden is currently an Assistant Professor in both the Department of Genetics at the Baylor College of Medicine, where he directs the newly-established Center for Genome Architecture, and in the Department of Computer Science and Computational and Applied Mathematics at Rice University across the street. In this interview, we discuss the road that Erez Lieberman Aiden went down to optimize the Hi-C protocol, the hurdles he had to overcome, and how Hi-C made it possible to probe the three-dimensional structure of the genome. References  <ul><li>Erez Lieberman-Aiden, Nynke L. van Berkum, … Job Dekker (2009) Comprehensive mapping of long-range interactions reveals folding principles of the human genome (Science (New York, N.Y.)) DOI: <a href="http://dx.doi.org/10.1126/science.1181369" rel="nofollow" target="_blank">10.1126/science.1181369</a> </li> <li>Suhas S. P. Rao, Miriam H. Huntley, … Erez Lieberman Aiden (2014) <a href="http://www.sciencedirect.com/science/article/pii/S0092867414014974" rel="nofollow" target="_blank">A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping</a> (Cell) DOI: <a href="http://dx.doi.org/10.1016/j.cell.2014.11.021" rel="nofollow" target="_blank">10.1016/j.cell.2014.11.021</a> </li> <li>Adrian L. Sanborn, Suhas S. P. Rao, … Erez Lieberman Aiden (2015) <a href="http://www.pnas.org/lookup/doi/10.1073/pnas.1518552112" rel="nofollow" target="_blank">Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes</a> (Proceedings of the National Academy of Sciences) DOI: <a href="http://dx.doi.org/10.1073/pnas.1518552112" rel="nofollow" target="_blank">10.1073/pnas.1518552112</a> </li> <li>Suhas S.P. Rao, Su-Chen Huang, … Erez Lieberman Aiden (2017) <a href="https://linkinghub.elsevier.com/retrieve/pii/S0092867417311200" rel="nofollow" target="_blank">Cohesin Loss Eliminates All Loop Domains</a> (Cell) DOI: <a href="http://dx.doi.org/10.1016/j.cell.2017.09.026" rel="nofollow" target="_blank">10.1016/j.cell.2017.09.026</a></li> </ul> Contact <ul><li><a href="https://twitter.com/activemotif" rel="nofollow" target="_blank">Active Motif on Twitter</a></li> <li><a href="https://twitter.com/epigenetics_pod" rel="nofollow" target="_blank">Epigenetics Podcast on Twitter</a></li> <li><a href="https://www.linkedin.com/company-beta/35651/" rel="nofollow" target="_blank">Active Motif on Linked-In</a></li> <li><a href="https://www.facebook.com/ActiveMotifInc/" rel="nofollow" target="_blank">Active Motif on Facebook</a></li> <li>eMail: podcast@activemotif.com</li></ul>

Hi-C and Three-Dimensional Genome Sequencing (Erez Lieberman Aiden)

Dr. Aiden works on analyzing the bending of our human genome, a 3-D complex arrangement that, in part, regulates our cells.  This conversation explores  how each chromatid forms unique loops and bends while patterns emerge across similar cell types, the mechanism that forms these loops—a protein complex that works almost like a lariat knot of a lasso, and why a better understanding of this molecular genetics architecture is important for medical treatments.    Dr. Erez Lieberman Aiden is an assistant professor of molecular and human genetics at Baylor College of Medicine. Over the course of the podcast, he describes how this architectural feat of our cells' genome is formed and the accompanying implications of the nature of this formation.  As he explains the complexity of molecular genetics, he begins with a description of how this two-meter-long DNA strand fits inside each of our nuclei. Further, because the sequencing of the human genome is such a recent scientific accomplishment, our understanding of these bending twists and loops is growing almost daily. He explains that this intricate packing of the human genome is not just a storage mechanism. Rather, as is the case with proteins, shape is essential to function—these physical loops form and bring enhancer elements in relation to a significant gene, for example. He adds that typically loops bring promoters of genes in contact with other elements in the genome to exchange information. All this gives rise to genetic regulation, which includes turning genes on and off. Dr. Aiden also explains the practicalities of how these molecular genetics studies are accomplished, such as what microscopy enables them to see. Finally, he discusses some of the implications of this research: scientists ask why we have the same genome in the brain and the heart yet the cells do different jobs. It's clear the gene changes how it folds in different organ systems and that fold changes how each cell functions. For more, see his lab page at https://www.aidenlab.org/ , which includes links to all the data from their research, and a recent  article he published in Scientific American that explores aspects of these themes:  https://www.scientificamerican.com/article/human-genome-3-d/. 

Dr. Aiden works on analyzing the bending of our human genome, a 3-D complex arrangement that, in part, regulates our cells. This conversation explores <ul> <li>how each chromatid forms unique loops and bends while patterns emerge across similar cell types,</li> <li>the mechanism that forms these loops—a protein complex that works almost like a lariat knot of a lasso, and</li> <li>why a better understanding of this molecular genetics architecture is important for medical treatments.</li> </ul> Dr. Erez Lieberman Aiden is an assistant professor of molecular and human genetics at Baylor College of Medicine. Over the course of the podcast, he describes how this architectural feat of our cells' genome is formed and the accompanying implications of the nature of this formation. As he explains the complexity of molecular genetics, he begins with a description of how this two-meter-long DNA strand fits inside each of our nuclei. Further, because the sequencing of the human genome is such a recent scientific accomplishment, our understanding of these bending twists and loops is growing almost daily. He explains that this intricate packing of the human genome is not just a storage mechanism. Rather, as is the case with proteins, shape is essential to function—these physical loops form and bring enhancer elements in relation to a significant gene, for example. He adds that typically loops bring promoters of genes in contact with other elements in the genome to exchange information. All this gives rise to genetic regulation, which includes turning genes on and off. Dr. Aiden also explains the practicalities of how these molecular genetics studies are accomplished, such as what microscopy enables them to see. Finally, he discusses some of the implications of this research: scientists ask why we have the same genome in the brain and the heart yet the cells do different jobs. It's clear the gene changes how it folds in different organ systems and that fold changes how each cell functions. For more, see his lab page at <a href="https://www.aidenlab.org/" rel="nofollow" target="_blank">https://www.aidenlab.org/</a> , which includes links to all the data from their research, and a recent <a href="https://www.scientificamerican.com/article/human-genome-3-d/" rel="nofollow" target="_blank"> article</a> he published in Scientific American that explores aspects of these themes: <a href="https://www.scientificamerican.com/article/human-genome-3-d/" rel="nofollow" target="_blank"> https://www.scientificamerican.com/article/human-genome-3-d/</a>.

Exploring Loops in the Human Genome: Dr. Erez Lieberman Aiden Explains His Research 