December 2023 Goals


I tried to do write I promise!! Those writing tasks just expanded into other tasks as I iterated and re-iterated my methods and results…so maybe now I can write?

November Goals recap

Green Crab Pilot Experiment:

West Coast Green Crab Experiment:

Coral Transcriptomics:

  • FINALLY ran a KOG analysis!
  • Started digging into gene lists, with several iterations of making tables that I think will be informative as I parse through the loads of data I now have
  • Started outlining discussion

Hawaii Gigas Methylation:

  • Poor Hawaii paper, so neglected that I never get around to actually doing anything for it


  • Submitted faculty applications
  • Re-reviewed paper for Aquaculture
  • Reviewed grant proposal for Genome BC
  • Did not launch RIE2 survey as I was waiting for confirmation about SMBE IDEA grant
  • Performed literature search for WOCinEEB Global Change collaboration
  • Kept up with meetings for CEABiGR

December Goals

Green Crab Pilot Experiment:

  • Conduct metabolomics analysis
  • Conduct lipidomics analysis
  • Draft talk for SICB

Coral Transcriptomics:

  • Finish interpreting gene lists
  • Outline discussion
  • Write discussion
  • Outline introduction
  • Write introduction
  • Write abstract

Hawaii Gigas Methylation:

  • Finish methylKit contingency tests
  • Conduct a randomization test for DML identification
  • Integrate other epigenetic datasets
  • Update methods and results
  • Revise discussion

West Coast Green Crab Experiment:

  • Revisit Julia’s samples for genotyping
  • Return to decontamination station and try to escape
  • Revise summer lab notebook


  • Submit additional faculty applications
  • Review paper for PLOS Climate
  • Review paper for Biological Bulletin
  • Launch RIE2 survey
  • Work on PRISMA searches for WOCinEEB Global Change collaboration

Deep Freeze

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

Virginica Methylation and Expression:

I’ll return to this when I have an updated discussion for the Hawaii paper.

  • Update methods and results from quadratic addition to transcriptional noise model
  • Compare transcriptional noise analysis with Liew and Aranda papers

Killifish Methylation and Expression:

I’ll return to this when I have a good draft of the coral paper.

  • Pathway analysis for RNA-Seq data
  • Determine protocol for SNP identification
  • Conduct in silico RRBS digestion
  • Characterize DEG that overlap between populations
  • Quantify gene expression variability
  • Visualize DEG data

Zebrafish DNMT:

I’ll think about this once I have a robust killifish paper draft.

  • 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
Written on December 1, 2023