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--- 4dn:phase2:scientific_webinar [2022/03/25 07:40]
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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 =====
-**March 25, 2022**
+**August 22, 2025**
-**Moderator: Ting Wang**
+**Zoom recording link**
-**Presenter: ** **Joao Raimundo ** (//Princeton University//) - "Topological Operons: Transcriptional Coupling of Distant Regulatory Genes in Living Embryos" ([[https://drive.google.com/file/d/1FNvQyXHnKlBIl0WJFg6pEkd5Es8x4KJ6/view?usp=sharing|Link to presenter slides]])
+**Moderator: Yuan Liu**
-**Presenter: ** **Maria-Elena Torres-Padilla ** (//Institute for Epigenetics and Stem Cells, Helmholtz Center Munich, Germany//) - " Epigenetic mechanisms of cellular plasticity and reprogramming to totipotency" ([[https://docs.google.com/presentation/d/1RBPMIcUHxebAz0DnQ4lDJxfmBXhNQJc3/edit?usp=sharing&ouid=105768913603538088409&rtpof=true&sd=true|Link to presenter slides]])
+**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]].
@@ Line 38: / Line 40: @@
 ===== 4DN Scientific Webinar Series =====
-<font 16px/inherit;;inherit;;inherit>**March 25, 2022**</font>
+<font 16px/inherit;;inherit;;inherit>**August 22, 2025**</font>
-<font 14px/inherit;;inherit;;inherit>**8:00-8:30 am Pacific Time,**  20 minutes talk, then 10 minutes Q&A</font>
+<font 14px/inherit;;inherit;;inherit>**8:00-8:30 am Pacific Time (20 minute presentation, 10 minute QA)**</font>
-{{:4dn:phase2:joaor..jpg?nolink&250x200|joaor..jpg}}
+**Jodi Lee**
-**Joao Raimundo**
+**Grad Student**
-Postdoc
+[[jodi.lee@gladstone.ucsf.edu|]]
-[[raimundo@princeton.edu|]]
+**Title: //“Predictive modeling to assess the role of 3D genome folding in human congenital heart disease”// **
-Title: "Topological Operons: Transcriptional Coupling of Distant Regulatory Genes in Living Embryos"
+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.
-I am a postdoctoral researcher in Mike Levine’s lab at Princeton University studying the role of genome topology on gene regulation and how genome folding contributes to the establishment of long-range enhancer-promoter communication during development. During my PhD I investigated how a subcellular tug-of-war between transcription factors constitutes a molecular switch underlying the asymmetrical shape of the snapdragon flower at Enrico Coen and Manuela Costa’s labs.
+<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 minutes talk, then 10 minutes Q&A</font>
+**Yanyu Zhu**
-{{:4dn:phase2:torres-padilla_cropped.jpg?nolink&250x200|torres-padilla_cropped.jpg}}
+**Postdoctoral Researcher**
-**Maria-Elena Torres-Padilla**
+[[yanyuzhu@stanford.edu|]]
-**Professor**
+**Title: //“High-resolution Dynamic Imaging of Chromatin DNA Communication using Oligo-LiveFISH”// **
-[[torres-padilla@helmholtz-muenchen.de|]]
+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.
-Title: "Epigenetic mechanisms of cellular plasticity and reprogramming to totipotency"
+The Webinar Series will be on the **4th Friday of each month from 8am-9am Pacific Time, 11am-12pm Eastern Time.**
-Maria-Elena studied Biology at the Faculty of Sciences of the UNAM, Mexico and obtained her Ph.D at the Institut Pasteur in Paris. She was a postdoctoral fellow at The Gurdon Institute, University of Cambridge and started her own lab in Strasbourg in 2009. She moved to Munich in 2016, where she is the Director of the Institute of Epigenetics & Stem Cells at Helmholtz Munich and is Professor of Stem Cell Biology at the LMU University. Maria-Elena’s research has been devoted to unravelling the epigenetic mechanisms behind cellular plasticity and cell fate. Her team combines high-resolution microscopy, single-cell and low-input genomic approaches with functional perturbations to study the epigenetic principles underlying cellular reprogramming and the establishment of totipotency in the early mouse embryo.
+**4DN OH is inviting you to a scheduled Zoom meeting.**
-===== HOW TO Join the Webinar =====
+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]]
-The Webinar Series will be on the **4th Friday of each month from 8am-9am Pacific Time, 11am-12pm Eastern Time.**
+**Join Zoom Meeting**\\ [[https://4dnucleome-org.zoom.us/j/89394518110?pwd=Z01JN3VxNlZXYkoxdW1PYWNZTzdaQT09|https://4dnucleome-org.zoom.us/j/89394518110?pwd=Z01JN3VxNlZXYkoxdW1PYWNZTzdaQT09]]
-**Join Zoom Meeting**\\ [[https://4dnucleome-org.zoom.us/j/95145522681?pwd=TFN4ZG0xamYwMXpvbnE1Y0dkMFllUT09|https://4dnucleome-org.zoom.us/j/95145522681?pwd=TFN4ZG0xamYwMXpvbnE1Y0dkMFllUT09]]
+Meeting ID: 893 9451 8110\\ Passcode: 049455\\ One tap mobile\\ +16694449171,,89394518110#,,,,*049455# US\\ +16699006833,,89394518110#,,,,*049455# US (San Jose)
-Meeting ID: 951 4552 2681\\ Passcode: 299876\\ One tap mobile\\ +16699006833,,95145522681#,,,,*299876# US (San Jose)\\ +13462487799,,95145522681#,,,,*299876# US (Houston)
+Dial by your location\\ +1 669 444 9171 US\\ +1 669 900 6833 US (San Jose)\\ +1 719 359 4580 US\\ +1 253 215 8782 US (Tacoma)\\ +1 346 248 7799 US (Houston)\\ +1 646 931 3860 US\\ +1 929 205 6099 US (New York)\\ +1 301 715 8592 US (Washington DC)\\ +1 309 205 3325 US\\ +1 312 626 6799 US (Chicago)\\ +1 386 347 5053 US\\ +1 564 217 2000 US\\ Meeting ID: 893 9451 8110\\ Passcode: 049455\\ Find your local number: [[https://4dnucleome-org.zoom.us/u/kdRh70g9yE|https://4dnucleome-org.zoom.us/u/kdRh70g9yE]]
-Dial by your location\\ +1 669 900 6833 US (San Jose)\\ +1 346 248 7799 US (Houston)\\ +1 253 215 8782 US (Tacoma)\\ +1 301 715 8592 US (Washington D.C)\\ +1 312 626 6799 US (Chicago)\\ +1 929 205 6099 US (New York)\\ Meeting ID: 951 4552 2681\\ Passcode: 299876\\ Find your local number: [[https://4dnucleome-org.zoom.us/u/aj8w26y0V|https://4dnucleome-org.zoom.us/u/aj8w26y0V]]
 **During Presentation:**
@@ Line 91: / Line 91: @@
 <font 16px/inherit;;inherit;;inherit>**Next Scientific Webinar Presentation**</font>
-**When:****April 22, 2022**
-**Moderator:****Sheng Zhong**
-__**Presenters:**__
-  * Member from **Danwei Huangfu (contact), Effie Apostolou, Christina Leslie's group**  (Presenter and title will be determined by group)
-  * Member from**David Schatz (contact), Siyuan Wang's group**  (Presenter and title will be determined by group)

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