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--- 4dn:phase2:working_groups:integrating_imaging_omics [2021/02/03 09:49]
frank_alber [Mission Statement]
+++ 4dn:phase2:working_groups:integrating_imaging_omics [2025/04/22 16:21] (current)
@@ Line 1: / Line 1: @@
-====== WTC 11 ======
+====== Integrating Imaging and Omics (IOWG) ======
-**Point people/organizers:** //Frank Alber, Bing Ren, Yin Shen, Susanne Rafelski//
+**Point people/organizers:** //Frank Alber, Yin Shen, Susanne Rafelski//
 <font inherit/inherit;;#c0392b;;inherit>**4DN Google Drive folder: **</font>[[https://drive.google.com/drive/folders/1sskUxIcdm9Aohp92XeNwv9wt6nNYR3U2?usp=sharing|https://drive.google.com/drive/folders/1sskUxIcdm9Aohp92XeNwv9wt6nNYR3U2?usp=sharing]]
@@ Line 8: / Line 8: @@
 <font inherit/inherit;;#c0392b;;inherit>**Agenda/minutes:**</font> [[https://docs.google.com/document/d/1-cgXP2sBcvZMT-Ap5Z5wzSYteRJnyAvQTsShsu9Wgw0/edit?usp=sharing|https://docs.google.com/document/d/1-cgXP2sBcvZMT-Ap5Z5wzSYteRJnyAvQTsShsu9Wgw0/edit?usp=sharing]]
+<font inherit/inherit;;#c0392b;;inherit>**Schedule for lightning talks:**</font> [[https://docs.google.com/document/d/1sR0aNxYZIw_0MtHBFaHS_O9fkKiAyNDXow31r-JN6PU/edit?usp=sharing|https://docs.google.com/document/d/1sR0aNxYZIw_0MtHBFaHS_O9fkKiAyNDXow31r-JN6PU/edit?usp=sharing]]
 <font inherit/inherit;;#c0392b;;inherit>**Meeting attendee spreadsheet: **</font>[[https://docs.google.com/spreadsheets/d/1pUjpEu0NoodCX4pHtf4lYxJn2DdhVWxwrThaiHYUy2o/edit?usp=sharing|https://docs.google.com/spreadsheets/d/1pUjpEu0NoodCX4pHtf4lYxJn2DdhVWxwrThaiHYUy2o/edit?usp=sharing]]
-<font inherit/inherit;;#c0392b;;inherit>**Email list:**</font> [[model-mechanism@4dnucleome.org|wtc-11@4dnucleome.org]]
+<font inherit/inherit;;#c0392b;;inherit>**Email list:**</font> <integrating-imaging-omics@4dnucleome.org>
-<font inherit/inherit;;#c0392b;;inherit>**Slack channel:**</font> #wg-wtc11
+<font inherit/inherit;;#c0392b;;inherit>**Slack channel:**</font> #wg-integrating-imaging-omics
-<font inherit/inherit;;#e74c3c;;inherit>**Landing page at the 4DN portal:**</font> [[https://data.4dnucleome.org/4DN-AICS-Collaboration|https://data.4dnucleome.org/4DN-AICS-Collaboration]]
+<font inherit/inherit;;#c0392b;;inherit>**Landing page at the 4DN Data Portal:**</font> [[https://data.4dnucleome.org/4DN-AICS-Collaboration|https://data.4dnucleome.org/4DN-AICS-Collaboration]]
 ===== Mission Statement =====
-Objective: Develop a general approach for studying the dynamic nuclear organization in mammalian cells. Ultimately, this will allow us to learn the general principles of dynamic nuclear organization of cells during the cell cycle, differentiation, and in response to extracellular signals.
+<font inherit/Arial,Helvetica,sans-serif;;inherit;;inherit><font 11pt/inherit;;inherit;;inherit>The working group’s efforts will be devoted to developing an integrative framework for combining imaging modalities with single cell and ensemble genomics data to study the changes in global cellular organization during biological processes, such as cell cycle, differentiation or perturbations.</font></font>
-**Goals of the working group:**
-The working group’s efforts will be devoted to developing an integrative framework for combining various imaging modalities—in particular live-cell imaging—with single cell and ensemble genomics data to study the changes in global cellular organization during biological processes, such as cell cycle, differentiation or perturbations. **An explicit goal of this working group is to provide a platform and foster interactions between researchers from different disciplines—imaging, genomics and computational modeling—to work jointly on this common goal**. The working group will develop strategies for data integration, common practices and potentially coordinate joint efforts in data generation for the benefit of a joint project.
+<font inherit/Arial,Helvetica,sans-serif;;inherit;;inherit><font 11pt/inherit;;inherit;;inherit>The working group has two main objectives:</font></font>
-**The working group is a continuation of an effort in phase 1, which focused on WTC11 cells as a target system to integrate live-cell imaging with genomics data for studying the temporal dimension of 3D genome organization.**The goal was to understand the principles by which cells reorganize in 3D space as they move from state to state in response to the cell cycle, differentiation, or changes in environment. **Although WTC11 will still be a primary target, the working group will foster all projects devoted to the integration of live-cell and other imaging modalities with omicsdata.**
+  - <font inherit/Arial,Helvetica,sans-serif;;inherit;;inherit><font 11pt/inherit;;inherit;;inherit>An explicit goal of this working group is to provide a platform and foster interactions between researchers from different disciplines—imaging, genomics and computational modeling—to work jointly on breaking the barriers in integrating imaging with omics data types. The working group will develop strategies for data integration, discuss common practices and compare different integration strategies. The strategies developed by this objective will be generally useful for a variety of 4DN projects and data types.</font></font>
+  - <font inherit/Arial,Helvetica,sans-serif;;inherit;;inherit><font 11pt/inherit;;inherit;;inherit>The second objective is to coordinate a joint effort in generating a variety of genomics and imaging data sets for a specific target system. Here, we focus on the WTC11 cell line and expand the joint effort of this working group from phase 1 in generating and analyzing a variety of imaging and genomics data. The initial focus on one cell type will guarantee the production of a rich data set, which will be applied to integration strategies developed in objective 1.</font></font>

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