Week Zero | Welcome GSoC

About Me

I am a PhD student at University of Minnesota, working with Dr. Rui Kuang. My research interests are machine learning, biological networks, drug discovery and graph theory.

GSoC Project

• GSoC Project URL
• Work Repository

Mentor: Augustin Luna (@cannin)

Tasks

1. Setup GSOC Blog.
   Status: Complete.
   Branch: None.
   PR: None.

   Setting up it thanks to Augustin’s help 🙇

2. Reformat CellMinerCDB Data for DrugCell .
   Status: In progress.
   Branch: None.
   PR: None.

   Explored data in the DrugCell here.

3. Document Project Dependencies.
   Status: In progress.
   Branch: None.
   PR: None.

   Created Python and R environment using pipenv.

4. Run DrugCell Model on CellMinerCDB Data.
   Status: In progress.
   Branch: None.
   PR: None.

   Try to do that here, but it did not work because I don’t know how to get the pair of cell line and SMILES. Want to make sure about this in next meeting.

Comments

• I explored sample data and got some knowledge about data structure.
• It looks not so difficult to make data, but I am not sure how to get some data like genes index related to SMILES.
• Want to discuss a lot about that.

Next Step

• Meeting with Augustin to talk about the flow of this project and some finding.
• Deciding if retraining model or not.