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--- 4dn:phase2:scientific_webinar [2023/02/24 06:31]
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+++ 4dn:phase2:scientific_webinar [2025/08/22 08:04] (current)
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@@ Line 5: / Line 5: @@
 **<font inherit/inherit;;#c0392b;;inherit>Scientific Webinar Calendar:</font> **  [[https://4dnucleome-org.zoom.us/meeting/tJEsc-ytrDksEtWNHy00h-5RmkNx7equ3Nca/ics?icsToken=98tyKuCtrz8vH9aXthGGRowMBY-gZ-_zpnpdj7dqsjf8U3BbL1bEO-lsKuV6Ac2D|click here]] to add all the Scientific Webinar events to your personal calendar
-<font inherit/inherit;;#c0392b;;inherit>**Scientific Webinar Assignments (2021-2024):**</font> [[http://docs.google.com/spreadsheets/d/122eouLgJtMoCJNKmNhygufdU1qqEy-dDomxqqyQ1TxM/edit?usp=sharing|docs.google.com/spreadsheets/d/122eouLgJtMoCJNKmNhygufdU1qqEy-dDomxqqyQ1TxM/edit?usp=sharing]]
+<font inherit/inherit;;#c0392b;;inherit>**Scientific Webinar Assignments (2021-2025):**</font> [[http://docs.google.com/spreadsheets/d/122eouLgJtMoCJNKmNhygufdU1qqEy-dDomxqqyQ1TxM/edit?usp=sharing|docs.google.com/spreadsheets/d/122eouLgJtMoCJNKmNhygufdU1qqEy-dDomxqqyQ1TxM/edit?usp=sharing]]
 ===== Mission =====
@@ Line 19: / Line 19: @@
 The Webinar organization committee has discussed and come up with a schedule for presentations after February 2021. See the schedule here: [[https://docs.google.com/spreadsheets/d/122eouLgJtMoCJNKmNhygufdU1qqEy-dDomxqqyQ1TxM/edit?usp=sharing|Scientific Webinar Assignment 2021-2024]].
-The schedule is ranked by funded project and the corresponding PI's last name. While the corresponding PI is put in the presentation slot, it is up to the corresponding PI to decide who in their team is to give the talk. It is encouraged that trainees are given the chance to present. If the corresponding PI wants to switch with someone else on the list in a mutual agreement, then she/he has the responsibility to arrange it and let the Webinar organization committee know.
+**The schedule is ranked by funded project and the corresponding PI's last name. While the corresponding PI is put in the presentation slot, it is up to the corresponding PI to decide who in their team is to give the talk. It is encouraged that trainees are given the chance to present. If the corresponding PI wants to switch with someone else on the list in a mutual agreement, then she/he has the responsibility to arrange it and let the Webinar organization committee know.**
 **Scientific Webinar Committee: **Ana Pombo, Golnaz Vahedi, Sheng Zhong, Ting Wang, Wenbo Li, Sui Huang, Yin Shen, Taekjip Ha
@@ Line 25: / Line 25: @@
 ===== Scientific Webinar Series slides presentations =====
-**February 24, 2023**
+**August 22, 2025**
-**Moderator: Ting Wang**
+**Zoom recording link**
-**Presenter: ****TzuChiao Hung** (//Stanford University//) - //"Boundary stacking interactions enable cross-TAD enhancer-promoter communication during limb development”// ([[https://docs.google.com/presentation/d/1ZqIvVIewKZyNb5EdfOrhKsuYE8HUP7pT/edit?usp=share_link&ouid=105768913603538088409&rtpof=true&sd=true|Link to presenter slides]])
+**Moderator: Yuan Liu**
-**Presenter: ****Tessa Popay** (//Salk Institute//) - //"////Refolding of the 3D genome as a precursor to post-mitotic transcriptional reactivation////”// ([[https://docs.google.com/presentation/d/1jb87BYTd_DNkVv8FZpUUr03KXire-Mp_/edit?usp=share_link&ouid=105768913603538088409&rtpof=true&sd=true|Link to presenter slides]])
-  * Scientific Webinar presentations (Phase 1) can be found [[https://wiki.4dnucleome.org/4dn:phase1:scientific_webinar_series:scientific_webinar_presentation_archive|here]].
+**Presenter: Jodi Lee **//(University of California, San Francisco) //**-** //**"Predictive modeling to assess the role of 3D genome folding in human congenital heart disease"**//  ([[https://drive.google.com/file/d/11mB2tB0l9egVjxAfJckfR3CKb3hy0qxe/view?usp=sharing|Link to presenter slides]])
+**Presenter: Yanyu Zhu** //(Stanford University) //- **//“High-resolution Dynamic Imaging of Chromatin DNA Communication using Oligo-LiveFISH”//**  ([[https://docs.google.com/presentation/d/1o9bXE1ZnWB0bxaXBYzDf1GE14dgzolUx/edit?usp=drive_link&ouid=105768913603538088409&rtpof=true&sd=true|Link to presenter slides]])
+  * Scientific Webinar presentations (Phase 1) can be found [[https://wiki.4dnucleome.org/4dn:phase1:scientific_webinar_series:scientific_webinar_presentation_archive|here]].
   * Scientific Webinar presentations (Phase 2) can be found [[https://wiki.4dnucleome.org/4dn:phase2:scientific_webinar_archive|here]].
 ===== 4DN Scientific Webinar Series =====
-<font 16px/inherit;;inherit;;inherit>**February 24, 2023**</font>
+<font 16px/inherit;;inherit;;inherit>**August 22, 2025**</font>
 <font 14px/inherit;;inherit;;inherit>**8:00-8:30 am Pacific Time (20 minute presentation, 10 minute QA)**</font>
-{{:4dn:phase2:outlook-4wdwgxhu_1.png?nolink&200x250}}
+**Jodi Lee**
-**TzuChiao Hung**
+**Grad Student**
-Ph.D. Student
+[[jodi.lee@gladstone.ucsf.edu|]]
-**[[tzuchiao@stanford.edu|]]**
+**Title: //“Predictive modeling to assess the role of 3D genome folding in human congenital heart disease”// **
-**Title: "****Boundary stacking interactions enable cross-TAD enhancer-promoter communication during limb development****"**
+Jodi is a 4th year graduate student studying genetics in Dr. Katherine Pollard’s Lab at the University of California, San Francisco. Jodi’s research focuses on creating and working with deep learning models to study the complex DNA sequence grammar regulating the genome. Currently, she is leveraging Cardiac-Akita, a DNA sequence to 3D genome folding deep learning model, to predict how genetic variants associated with congenital heart defects disrupt 3D genome contacts.
-Tzu-Chiao Hung is a PhD student in the department of developmental biology at Stanford University. He studies how variations in enhancer sequences result in phenotypic differences in David Kingsley's lab. His collaboration with Alistair Boettiger sought to answer that question by examining chromatin conformation and uncovered some unexpected results regarding how enhancer-promoter communication across TAD borders.<font 14px/inherit;;inherit;;inherit>**8:30-9:00 am Pacific Time (20 minute presentation, 10 minute QA)**</font>
+<font 14px/inherit;;inherit;;inherit>**8:30-9:00 am Pacific Time (20 minute presentation, 10 minute QA)**</font>
-{{:4dn:phase2:tessa-popay-20210921-551a9923_1.jpg?nolink&200x250|tessa-popay-20210921-551a9923.jpg}}
+**Yanyu Zhu**
-**Tessa Popay**
+**Postdoctoral Researcher**
-**Postdoctoral Fellow**
+[[yanyuzhu@stanford.edu|]]
-[[tpopay@salk.edu|]]
+**Title: //“High-resolution Dynamic Imaging of Chromatin DNA Communication using Oligo-LiveFISH”// **
-**Title: "****Refolding of the 3D genome as a precursor to post-mitotic transcriptional reactivation****"**
+Yanyu Zhu is a postdoctoral researcher in Prof. Stanley Qi’s Lab in the Department of Bioengineering at Stanford University. He obtained his B.S. in Chemistry from Peking University and his Ph.D. in Chemistry from the University of Wisconsin–Madison. In collaboration with Prof. W. E. Moerner’s lab, he developed and applied a high-resolution, reagent-based DNA imaging platform, Oligo-LiveFISH, to investigate 3D chromatin dynamics in live cells. His current research focuses on applying Oligo-LiveFISH to study various biological questions such as the relationship between the 3D genome and gene regulation in real time, as well as investigating the dynamic process of DNA repair.
-Tessa Popay is a Postdoctoral Fellow in Jesse Dixon’s lab at the Salk Institute. She completed her PhD at Vanderbilt University, studying the role of the MYC–HCF-1 interaction in controlling gene expression, and her B.S. at the University of Auckland. Her research in the Dixon lab focuses on disentangling the relationship between the 3D genome and transcriptional regulation through manipulation of cohesin and its accessory proteins.
-===== HOW TO Join the Webinar =====
 The Webinar Series will be on the **4th Friday of each month from 8am-9am Pacific Time, 11am-12pm Eastern Time.**
-DN OH is inviting you to a scheduled Zoom meeting.
+**4DN OH is inviting you to a scheduled Zoom meeting.**
 Topic: 4DN Scientific Webinar\\ Please download and import the following iCalendar (.ics) files to your calendar system.\\ Monthly: [[https://4dnucleome-org.zoom.us/meeting/tZ0ufu2trzMrG9SNYBoxiO0YxjK3-LEvoHWL/ics?icsToken=98tyKuGhrTIuH9WdsRiHRpx5A4r4LO_zmFxcjfpusibHDDhaTVPPLuhpYf9TNc7f|https://4dnucleome-org.zoom.us/meeting/tZ0ufu2trzMrG9SNYBoxiO0YxjK3-LEvoHWL/ics?icsToken=98tyKuGhrTIuH9WdsRiHRpx5A4r4LO_zmFxcjfpusibHDDhaTVPPLuhpYf9TNc7f]]
@@ Line 93: / Line 91: @@
 <font 16px/inherit;;inherit;;inherit>**Next Scientific Webinar Presentation**</font>
-**When: March 24, 2023**
-**Moderator: Sui HUang**
-  * Presenter from **Huaiying Zhang's**  team
-  * Presenter from **Yarui Diao****'s team **

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