染色质与表观遗传学系列讲座第3场- Bing Ren
2021 Jan 6th 11:00-12:00 (Beijing Time)
Zoom网络研讨会: 843 6931 3262
Webinar ID: 843 6931 3262
Bilibili Live: http://live.bilibili.com/7899547
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主讲人简介| Speaker Biography
Dr. Ren is Director of the Center for Epigenomics and Professor of Cellular and Molecular Medicine at the University of California, San Diego (UCSD). He is also a Member of the Ludwig Institute for Cancer Research (LICR). Dr. Ren obtained his Ph.D. in Biochemistry from Harvard University in 1998 and joined the faculty at LICR and UCSD in 2001, after completing postdoctoral training at the Whitehead Institute. Dr. Ren is studying how the non-coding sequences in the human genome direct spatiotemporal patterns of gene expression, how epigenetic mechanisms regulate their output during development, and how changes in these sequences contribute to human diseases. Specifically, he focuses on the identification and characterization of a class of transcriptional control elements known as enhancers. His lab has developed transformative tools for genome-wide analysis of enhancers and elucidated the chromatin features of these regulatory sequences. He is a recipient of the Chen Award for Distinguished Academic Achievement in Human Genetic and Genomic Research, and an elected fellow of the American Association for the Advancement of Science.
Understanding Complex Traits and Diseases with Single-cell Epigenomics
A large number of sequence variants have been linked to complex traits and disease through genome-wide association studies, but deciphering their biological function is still challenging because most of them reside in noncoding DNA, where functional annotation is still lacking. A growing list of studies has shown that noncoding risk variants may contribute to human disease by perturbing the transcriptional regulatory sequences. However, it is still unclear whether this mechanism generally applies to the tens of thousands of risk variants identified to date. Efforts to address this question have been hampered by a lack of maps and tools to explore the transcriptional regulatory sequences in the human genome. I will present our recent progress in the mapping of candidate transcriptional regulatory sequences in the human and mouse genomes with single cell epigenomics tools. I will also discuss the development of highly predictive models for assessing the impact of sequence variants on DNA binding of transcription factors. Finally, I will describe how mapping the long-range chromatin interactions allows us to infer the target genes of noncoding risk variants in common diseases.
主讲人近年发表论文摘选| Selected Recent Publications
1. Gorkin, David U., et al. "An atlas of dynamic chromatin landscapes in mouse fetal development." Nature 583.7818 (2020): 744-751.
2. Gorkin, David U., et al. "Common DNA sequence variation influences 3-dimensional conformation of the human genome." Genome biology 20.1 (2019): 1-25.
3. Zhu, Chenxu, et al. An ultra high-throughput method for single-cell joint analysis of open chromatin and transcriptome. Nature Publishing Group, 2019.
4. Jung, Inkyung, et al. "A compendium of promoter-centered long-range chromatin interactions in the human genome." Nature genetics (2019): 1-8.
5. Zhang, Yanxiao, et al. "Transcriptionally active HERV-H retrotransposons demarcate topologically associating domains in human pluripotent stem cells." Nature genetics 51.9 (2019): 1380-1388.
6. Li, Guoqiang, et al. "Joint profiling of DNA methylation and chromatin architecture in single cells." Nature methods 16.10 (2019): 991-993.
7. Juric, Ivan, et al. "MAPS: model-based analysis of long-range chromatin interactions from PLAC-seq and HiChIP experiments." PLoS computational biology 15.4 (2019): e1006982.
Preissl, Sebastian, et al. "Single-nucleus analysis of accessible chromatin in developing mouse forebrain reveals cell-type-specific transcriptional regulation." Nature neuroscience 21.3 (2018): 432-439.
8. Yan, Jian, et al. "Histone H3 lysine 4 monomethylation modulates long-range chromatin interactions at enhancers." Cell research 28.2 (2018): 204-220.
9. Local, Andrea, et al. "Identification of H3K4me1-associated proteins at mammalian enhancers." Nature genetics 50.1 (2018): 73-82.
10.Yu, Miao, and Bing Ren. "The three-dimensional organization of mammalian genomes." Annual review of cell and developmental biology 33 (2017): 265-289.
11. Diao, Yarui, et al. "A tiling-deletion-based genetic screen for cis-regulatory element identification in mammalian cells." Nature methods 14.6 (2017): 629-635.
12. Xiong, Xiong, et al. "A scalable epitope tagging approach for high throughput ChIP-Seq analysis." ACS synthetic biology 6.6 (2017): 1034-1042.