ObjectivesThe second part of the two-part workshop on Single Cell Sequencing Techniques in Plant Biology. This workshop aims to introduce well-established methods and approaches to analyzing scRNA-seq data. Specifically, it seeks to present a compilation of minimum considerations required to analyze and store scRNA-seq results, including QC assessment of the raw and processed data, clustering, differential gene expression, and annotation. It will also provide a look at cutting-edge strategies for multi-modal data integration and its application. Finally, the workshop will offer opportunities for speakers and participants to discuss sc-RNA-seq technologies in plant-specific systems.
|
RegistrationDate: November 30, 2023
Workshop Times PST - 7:55am - 12:40pm MST - 8:55am - 1:40pm CST - 9:55am - 2:40pm EST - 10:55am - 3:40pm CET - 4:55pm - 9:40pm GMT+8 - 11:55am (12/1/23)- 4:40am (12/1/2023) Search for your time zone here. Workshop Organizers and Speakers |
Speakers
- Sina Booeshaghi (California Institute of Technology, USA)
- Robin Buell (University of Georgia, USA)
- Hongyu Chen (Zhejiang University, China)
- Benjamin Cole (Joint Genome Institute, USA)
- Bert de Rybel (VIB Center for Plant Systems Biology/Ghent University, Belgium)
- Andrew Farmer (National Center for Genome Resources, USA)
- Che-Wei Hsu (Duke University, USA)
- Irene Papatheodorou (EMBL-European Bioinformatics Institute, UK)
Agenda
7:55 AM - 8:00 AM PT
|
Opening Remarks
|
8:00 AM - 8:20 AM PT
|
Bert de Rybel (VIB-PSB /Ghent University, Belgium)
Talk Topic: Introduction to scRNA-seq its applications in plants |
8:30 AM - 8:45 AM PT
|
8:50 AM - 8:15 AM PT
|
Irene Papatheodorou (EMBL-European Bioinformatics Institute, UK)
Talk Topic: Tools for QC analysis, processing scRNA-seq raw data, and generation of count matrices |
9:20 AM - 9:45 AM PT
|
9:50 AM - 10:00 AM PT
|
Break
|
10:00 AM - 10:25 AM PT
|
Sina Booeshaghi (California Institute of Technology, USA)
Talk Topic: Identification of cell clusters after generation of count matrices |
10:30 AM - 10:55 AM PT
|
Hongyu Chen (Zhejiang University, China)
Talk Topic: Identification and annotation of cell clusters using PlantscRNAdb |
11:00 AM - 11:25 AM PT
|
Andrew Farmer (National Center for Genome Resources, USA)
Talk Topic: Integrating multimodal datasets |
11:30 AM - 11:55 AM PT
|
Robin Buell (University of Georgia, USA)
Talk Topic: Integrating multimodal data and single-cell biology in nonmodel organisms |
12:00 PM - 12:10 PM PT
|
Break
|
12:10 PM - 12:40 PM PT
|
Panel Discussion
|