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--- 4dn:phase2:scientific_webinar [2022/08/22 06:57]
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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 =====
-**August 26, 2022**
+**August 22, 2025**
-**Moderator: Golnaz Vahedi**
+**Zoom recording link**
-**Presenter: Vahid Ebrahimi** (University of Central Florida) - //"Deep learning enables gentle 5D STED imaging" // (Link to presenter slides)
+**Moderator: Yuan Liu**
-**Presenter: Xueqiu Lin** (Stanford University) - //"Nested Enhancer Epistasis Networks Link Multiple Non-coding Variants to Disease Risk" // (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>**August 26, 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:ebrahimi_vahid2.jpg?nolink&250x200}}
+**Jodi Lee**
-**Vahid Ebrahimi**
+**Grad Student**
-**PhD candidate**
+[[jodi.lee@gladstone.ucsf.edu|]]
-[[v.ebrahimi@knights.ucf.edu|]]
+**Title: //“Predictive modeling to assess the role of 3D genome folding in human congenital heart disease”// **
-Title: //"Deep learning enables gentle 5D STED imaging"//
+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.
-Vahid Ebrahimi is a PhD candidate at the University of Central Florida. He completed his B.Sc. and M.Sc. in Electrical Engineering at the University of Tehran. He then joined the lab of Dr. Kyu Young Han in the College of Optics and Photonics (CREOL) at the University of Central Florida, where he works on new experimental and computational techniques for high throughput and high resolution sub-cellular imaging. His PhD thesis work focuses on the applications of deep learning in super-resolution live cell microscopy.
+<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:xlin.jpeg?nolink&250x200}}
+**Postdoctoral Researcher**
-**Xueqiu Lin**
+[[yanyuzhu@stanford.edu|]]
-**Postdoc**\\ [[xqlin@stanford.edu|]]\\ Title: //“Nested Enhancer Epistasis Networks Link Multiple Non-coding Variants to Disease Risk”//
+**Title: //“High-resolution Dynamic Imaging of Chromatin DNA Communication using Oligo-LiveFISH”// **
-Xueqiu Lin is a postdoctoral scholar in Dr. Stanley Lei Qi’s lab at Stanford University. Her research focuses on combining high-throughput engineering approaches with computational methods to study the function of enhancer regulatory networks in controlling genes. Her research has led to the development of novel computational models that link multiple non-coding genetic variants to understanding complex disease.
+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.**
-**Join Zoom Meeting**\\ [[https://4dnucleome-org.zoom.us/j/95145522681?pwd=TFN4ZG0xamYwMXpvbnE1Y0dkMFllUT09|https://4dnucleome-org.zoom.us/j/95145522681?pwd=TFN4ZG0xamYwMXpvbnE1Y0dkMFllUT09]]
+**4DN OH is inviting you to a scheduled Zoom meeting.**
-Meeting ID: 951 4552 2681\\ Passcode: 299876\\ One tap mobile\\ +16699006833,,95145522681#,,,,*299876# US (San Jose)\\ +13462487799,,95145522681#,,,,*299876# US (Houston)
+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]]
-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]]
+**Join Zoom Meeting**\\ [[https://4dnucleome-org.zoom.us/j/89394518110?pwd=Z01JN3VxNlZXYkoxdW1PYWNZTzdaQT09|https://4dnucleome-org.zoom.us/j/89394518110?pwd=Z01JN3VxNlZXYkoxdW1PYWNZTzdaQT09]]
+Meeting ID: 893 9451 8110\\ Passcode: 049455\\ One tap mobile\\ +16694449171,,89394518110#,,,,*049455# US\\ +16699006833,,89394518110#,,,,*049455# US (San Jose)
+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]]
 **During Presentation:**
@@ Line 87: / Line 91: @@
 <font 16px/inherit;;inherit;;inherit>**Next Scientific Webinar Presentation**</font>
-**When: September 23****, 2022**
-**Moderator: Ana Pombo**
-  * **Member from ****Lacramiora Bintu (contact) Alistair Boettige****r's ****group //(Presenter and title will be determined by group)// **
-  * **Member from ****Job Dekker (contact) Leonid Mirny****'s group //(Presenter and title will be determined by group)// **

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