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--- 4dn:phase2:scientific_webinar [2024/05/15 10:33]
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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 25: / Line 25: @@
 ===== Scientific Webinar Series slides presentations =====
-**May 24, 2024**
+**August 22, 2025**
-**Moderator: Taekjip Ha**
+**Zoom recording link**
-**Presenter: ****Harshini Chandrashekar **//(University of Pennsylvania)//** - //"Addressing the genome's structure-function relationship in Familial Alzheimer's Disease" //** (Link to presenter slides)
+**Moderator: Yuan Liu**
-**Presenter: ****Johannes Stein**// (Harvard Medical School) //**- //“Cryosectioning-enabled super-resolution microscopy for studying nuclear architecture at the single protein level”// **// // (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]])
-  * Scientific Webinar presentations (Phase 1) can be found [[https://wiki.4dnucleome.org/4dn:phase1:scientific_webinar_series:scientific_webinar_presentation_archive|here]].
+**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>**May 24, 2024**</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>
-**Harshini Chandrashekar**
+**Jodi Lee**
-**Graduate Student**
+**Grad Student**
-[[hchand@seas.upenn.edu|]]
+[[jodi.lee@gladstone.ucsf.edu|]]
-**Title: //“Addressing the genome's structure-function relationship in Familial Alzheimer's Disease”// **
+**Title: //“Predictive modeling to assess the role of 3D genome folding in human congenital heart disease”// **
-Harshini is a senior graduate student in Jennifer Cremins' lab at the University of Pennsylvania in the Department of Bioengineering. Prior to joining the Cremins Lab, she earned her Master's in Bioinformatics from Georgia Tech, Atlanta. Harshini's focus is on understanding how the 3D genome folding patterns, particularly chromatin loops, regulate gene expression in neurological disorders and neural activation model systems.
+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.
 <font 14px/inherit;;inherit;;inherit>**8:30-9:00 am Pacific Time (20 minute presentation, 10 minute QA)**</font>
-**Johannes Stein**
+**Yanyu Zhu**
-**Postdoctoral fellow**
+**Postdoctoral Researcher**
-[[Johannes.Stein@wyss.harvard.edu|]]
+[[yanyuzhu@stanford.edu|]]
-**Title: //“Cryosectioning-enabled super-resolution microscopy for studying nuclear architecture at the single protein level”// **
+**Title: //“High-resolution Dynamic Imaging of Chromatin DNA Communication using Oligo-LiveFISH”// **
-Johannes is a postdoctoral fellow in the labs of Ting Wu and George Church at the Wyss Institute and Harvard Medical School. With a background in physics, he ventured into biology during his PhD at the Max Planck Institute of Biochemistry in Germany, where he developed tools for quantitative super-resolution microscopy. His current research focus is enabling the visualization of nuclear organization at the single protein level.
+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.
-===== 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 92: / Line 91: @@
 <font 16px/inherit;;inherit;;inherit>**Next Scientific Webinar Presentation**</font>
-**When: June 28, 2024**
-**Moderator: Wenbo Li**
-  * Presenter from **Bing Ren (contact), Catherine Dulac, Mario Nicodemi, Ana Pombo, Ting Wang, Xiaowei Zhuang**'**s team **
-  * Presenter from **R. David Hawkins****'s**  team

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