March 2023 Goals

Screenshot 2023-01-10 at 10 25 58 AM

Hi. It’s been a while since I wrote some concrete goals! But seeing how this is my last month on my WHOI Postdoctoral Scholarship before I transition to the NSF PRFB, I thought it would be good to assess the status of my current projects and do some prioritizing.

December Goals + the first bit of 2023 recap

Coral Transcriptomics:

  • Solidified OrthoFinder methods
  • Got results from the OrthoFinder analysis!
  • Worked on HRE analysis
  • Updated methods and results in paper

Green Crab Pilot Experiment:

Hawaii Gigas Methylation:

  • Restructured paper to reflect a move back to methylKit
  • Sam extracted SNPs with EpiDiverse, but I haven’t looked at the output

Virginica Methylation and Expression:

  • Revisited transcriptional noise analysis


  • Launched the postdoc mentoring program!
  • I haven’t distributed the postdoc mentoring survey results, but I’ll have the next set of PDA representatives do that
  • Started applying mindful productivity tenets to my working habits

March Goals

My main focus for March is to get the coral project in a place where I can shift to writing. This means having all analyses completed, methods and results written, and an outlined discussion. My goals reflect this priority!

Coral Transcritomics:

  • Finish remaining analyses
  • Update methods
  • Update results
  • Outline discussion
  • Get Ann or Maggie to provide comments on materials written

Hawaii Gigas Methylation:

  • Add Rajan’s edits as comments to the draft manuscript
  • Review EpiDiverse output and create a new SNP list
  • Rerun methylKit
  • Conduct a randomization test for DML identification
  • Update methods and results

Green Crab Pilot Experiment:

  • Determine workflow for metabolomics sample processing
  • Order materials for metabolomics samples
  • Finish demographic data analysis
  • Update methods and results

Virginica Methylation and Expression:

  • Update results with initial mixOmics analysis
  • Revise gene-based transcriptional noise model
  • Create sample-based transcriptional noise model
  • Look into spurious transcription methods
  • Create a SNP list from EpiDiverse output


  • NSF PRFB start paperwork
  • Eelgrass transcriptomics reviewer comments
  • Module 1 of mindful productivity for scientists class

Deep Freeze

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

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 March 1, 2023