It’s experiment month! I’m focusing on the green crab work for July and letting everything else be a second priority.

June Goals Recap

Killifish Methylation and Expression:

• Went through the closest genes to each DMR
• Revised methylation landscape analysis
• Didn’t have time for anything else since I was focusing on the green crab work

Green Crab Pilot Experiment:

• Figured out how to manipulate temperature
• Completed respiration trial!
• Finished setting up and STARTED THE EXPERIMENT

Virginica Methylation and Expression:

• Helped finalize the methylation analysis with DML genomic location information

Other:

• Submitted reproduction review paper!

July Goals

Green Crab Pilot Experiment:

• Finalize respirometry and time-to-right protocols
• Continue with experiment
• Sample heart tissue for metabolomics

Coral Transcriptomics:

• Conduct preliminary Tag-Seq differential expression analysis in preparation for a week of in-person work with Maggie

Killifish Methylation and Expression:

• Test BAT_DMRcorrelating to match RRBS and RNA-Seq data
• Start RRBS mapping with new genome

Virginica Methylation and Expression:

• Finalize methylation data and results
• Determine which hypothesis-driven analyses from the workshop should be incorporated into the paper or redone based on gene expression results
• Finish transcriptional noise analysis
• Return to SPLS

Other:

• Distribute results of postdoctoral mentorship experiences survey
• Launch the postdoctoral mentoring program
• Apply for any relevant faculty positions or funding opportunities

Deep Freeze

Things that are not immediate enough to be on the backburner, so they’re stuck in the deep freeze.

Hawaii Gigas Methylation:

Once the eelgrass paper is submitted and the Manchester paper is about to be published, I can start thinking about this paper again.

• Address Rajan’s edits
• Return to methylKit for better interpretation
• Extract SNPs with EpiDiverse and create a relatedness matrix
• Look at methylation islands and non-methylated regions
• Examine overlaps between DML and other epigenomic datasets from Sascha

Zebrafish DNMT:

I’ll think about this once I finish my pilot experiment.

• Identify a stress condition to use for the zebrafish based on disease factors or conditions that are known to induce changes in methylation
• Determine physiological endpoints to assess for embryos
• Construct a project timeline