Hackathon202305

Our first hackathon!

When:

Monday May 22 is the Neural Network workshop

Tuesday May 23 is the Hackathon

10am to when our food runs out.

The what:

For each gene, we want to be able to predict its decay rate, i.e. half-life or equivalent measures, using properties of genes.

Validation data:

We have half-life measurements from the following sources:

• mmu 3T3 cells from Eisen et al https://doi.org/10.1016/j.molcel.2019.12.005
• mmu ESC from Sharova et al https://doi.org/10.1093/dnares/dsn030
• hsa HeLa from Tani et al https://genome.cshlp.org/content/22/5/947.full
• hsa various from Tani's Supplementary Tables

Features:

From Ensembl (v92):

• Exonic lengths (UTR5 - CDS - UTR3)
• GC content (need to get)

From the lab:

• mmu 3T3: two samples (one MION, one PION)
• hsa HeLa

To obtain:

• Expression data
• Slide parameters: Proportion of full-length reads, max poly(A)-tail length

Misc tips:

• Open drinks need to be two spill distances away from any computer