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--- 4dn:phase2:scientific_webinar [2021/04/12 09:17]
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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 =====
-**April 23, 2021**
+**August 22, 2025**
-**Presenter: Jesse Dixon ** (Salk Institute)** - **"3D genome structural alterations and oncogene expression in cancer genomes." (Link to presenter slides)
+**Zoom recording link**
-**Presenter: Yarui Diao** (Duke University) - "Analysis of cis-regulatory chromatin contacts anchored on open DNA sequences by HiCAR" (Link to presenter slides)
+**Moderator: Yuan Liu**
+**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:working_groups:inreach_outreach:scientific_webinar_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>**April 23, 2021**</font>
+<font 16px/inherit;;inherit;;inherit>**August 22, 2025**</font>
-<font 14px/inherit;;inherit;;inherit>**8:00-8:20 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:working_groups:inreach_outreach:jesse_dixon.jpg?nolink&200x250|jesse_dixon.jpg}}
+**Jodi Lee**
-**Jesse Dixon**
+**Grad Student**
-**Ph.D.**
+[[jodi.lee@gladstone.ucsf.edu|]]
-[[jedixon@salk.edu|]]
+**Title: //“Predictive modeling to assess the role of 3D genome folding in human congenital heart disease”// **
-Title: "3D genome structural alterations and oncogene expression in cancer genomes."
+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.
-Jesse Dixon is an Assistant Professor at the Salk Institute in San Diego, CA, whose lab is interested in 3D genome folding and its relationship with somatic mutations. Prior to joining Salk, Dr. Dixon was a graduate student at UC San Diego in the laboratory of Dr. Bing Ren, where he studied 3D genome structure in embryonic stem cell differentiation.
+<font 14px/inherit;;inherit;;inherit>**8:30-9:00 am Pacific Time (20 minute presentation, 10 minute QA)**</font>
-**8:30-8:50 am Pacific Time,**  20 minutes talk, then 10 minutes Q&A
+**Yanyu Zhu**
-{{:4dn:phase2:working_groups:inreach_outreach:yarui_diao.jpg?nolink&200x250|yarui_diao.jpg}}
+**Postdoctoral Researcher**
-**Yarui Diao**
+[[yanyuzhu@stanford.edu|]]
-**Ph.D.**
+**Title: //“High-resolution Dynamic Imaging of Chromatin DNA Communication using Oligo-LiveFISH”// **
-[[yarui.diao@duke.edu|]]
+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: "Analysis of cis-regulatory chromatin contacts anchored on open DNA sequences by HiCAR"
+The Webinar Series will be on the **4th Friday of each month from 8am-9am Pacific Time, 11am-12pm Eastern Time.**
-Yarui received his PhD in Biochemistry from Hong Kong University of Science and Technology. His PhD work was focused on transcriptional and epigenetic control of skeletal muscle regeneration. With the support of Human Frontier Science Program (HFSP) fellowship, he joined Dr. Bing Ren’s lab at UCSD for his postdoc training, and lead the effort to develop high-throughput CRISPR screening strategies to identify functional enhancers from the native chromatin context. He was also a key team member to generate the promoter capture Hi-C data using 27 human cells and primary tissues. In Sep 2018, he started his faculty position as an Assistant Professor in the Department of Cell Biology at Duke University, to continue his effort to develop and deploy cutting-edge functional genomics tools to delineate the gene regulation mechanism controlling tissue regeneration. He is the recipient of NHGRI Genomic Innovator Award, V Scholar for Cancer Research, Glenn foundation and AFAR Junior Faculty Award, and Duke University Whitehead scholar.
+**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 89: / Line 91: @@
 <font 16px/inherit;;inherit;;inherit>**Next Scientific Webinar Presentation**</font>
-**When:**  May 28, 2021
-**Moderator:**  Sheng Zhong
-__**Presenters:**__
-  * Member from **Reza Kalhour's**  group (Presenter and title will be determined by group)
-  * Member from **Sheng Zhong's**  group (Presenter and title will be determined by group)

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