We’re continuing the trend of getting things done and off of my plate! There are a handful of projects that are in final analysis/writing stage that I’m hoping to get wrapped up before experiments start this summer.

March Goals recap

Virginica Methylation and Expression:

• Counted DML in genes with a predominant isoform shift
• Analyzed changes in the maximum number of transcripts expressed
• Performned enrichment analyses for relevant datasets
• Compared enrichment results across tests and read relevant papers
• Create all figures in this issue
• SUBMITTED MANUSCRIPT!!!!!!!!!!!!!

West Coast Green Crab Experiment:

• Finished extractions and PCR for most crabs with an associated sample and sent them for sequencing!
• Taught Vanessa how to use Sequencher to analyze genotype data

Green Crab Pilot Experiment:

• Read some more green crab thermal physiology literature and percolated on my metabolomics analysis

Coral Transcriptomics:

• Finalized abstract

Other:

• Supervised Sophia’s data extraction
• Sent papers to the appropriate groups
• Submitted GSA Starter Microculture grant for RIE2

April Goals

Green crab Pilot Experiment

• Revise metabolomics analysis
• Revise lipidomics analysis
• Update all methods and results

West Coast Green Crab Experiment:

• Finish all extractions, PCR, and gels
• Send remaining samples for sequencing

Killifish Methylation and Expression:

• Update methods
• Update results
• Update figures
• Make list of additional analyses needed
• Outline discussion points

Coral Transcriptomics:

• Write discussion

Other:

• Plan summer experiment
• Plan RIE2 hackathon
• Advertise RIE2 database
• Book flights for SEB

Deep Freeze

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

Hawaii Gigas Methylation:

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

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

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