Common Fund Data Ecosystem (CFDE) Virtual Workshop: "Biomarker discovery from extracellular (cell-free) RNA-seq and tissue of origin from GTEx RNA-seq profiles"
Thursday September 12th 2024
1-3 pm ET / 10am-Noon PT
Requires Free Registration by September 9th
Join us for an engaging hands-on workshop where Meenu Srinivasan of the Louise Laurent Lab at the University of California-San Diego will demonstrate how to perform integrative data analysis utilizing data from two Common Fund Data Ecosystem (CFDE) Data Coordinating Center portals followed by an interactive Q&A session.
The featured use case will illustrate biomarker discovery from extracellular cell-free RNA-seq data with tissue of origin identification through integrative analysis of GTEx tissue-derived RNA-seq data and plasma-derived small RNA-seq data from the ERCC exRNA Atlas.
To conduct workshop exercises in real time, attendees wishing to take part in the hands-on analysis will need to have the following installed prior to dialing into the workshop as there will not be time to conduct installations during the workshop.
- Python (3.10 or greater)
- R (4.2 or greater)
- R packages (latest versions):
- data.table
- tidyr
- reshape2
- dplyr
- gdata DESeq2
- BiocParallel
- ggplot2
- ggsignif
A link to the virtual meeting will be provided in a confirmation email and again via reminder email on September 10th.
If you have any questions, please feel free to email Elke Eastaugh at elken@bcm.edu
We look forward to seeing you there!
