April Goals Recap

April Goals

Pilot Green Crab Experiment:

• Finished addressing comments from all co-authors!

West Coast Green Crab Experiment:

• Still in transcriptome annotation hell because EnTAP is literally, as the youth say, “crashing out”

MMEP Lab:

• Created project tracking spreadsheet!
• Updated budget spreadsheet!
• Created Code of Conduct!
• Created lab Slack and calendar!
• Worked with Ashray to refine DESeq2 analysis and repeat methods wiht full dataset
• Worked with Mikaela, Emma, and Clara to conduct background research for their project and develop a research question
• Trained Sasha and Noemi on DNA extractions
• Ordered materials for PCR
• Waiting to hear back on ordering restriction digest and ELISA methylation assay materials

Other:

• Drafted codes for questions
• Met with Nancy to come up with consensus codes
• Worked on digital accessibility for all Module 2 content

May Goals

Pilot Green Crab Experiment:

• Submit manuscript to JEB!
• Submit manuscript to bioRXiv if all co-authors agree!

West Coast Green Crab Experiment:

• Talk to Carolyn to come up with a good approach for finishing transcriptome annotation
• Annotate transcriptome with EnTAP
• Start drafting methods section of paper

MMEP Lab:

• Create lab handbook
• Update SCU website with brief information
• Photos and bios of undergraduate members on website
• Update recruitment information on website
• Finish student hiring processes for summer
• Work with Ashray to understand temperature x genotype and temperature x time interactions on gene expression
• Finalize experimental design for Mikaela, Emma, and Clara
• Train Sasha and Noemi on PCR, restriction digests, and gels

Other:

• Digital accessibility for Module 3 and 4 content
• Give seminars at Stanford and SFSU
• Test codes on next 50 entries

Back Burner

I haven’t worked on these projects in a while, but they are next on my to-do list. I don’t think they need to be in the deep freeze so I guess I gotta turn the back burner on!

Hawaii Gigas Methylation:

• Revise methylKit code
• Run bismark with the new C. gigas genome
• Update methods and results
• Revise discussion
• Revise introduction
• Revise abstract

Deep Freeze

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

Coral Transcriptomics:

These are things I need to do and can probably knock out in a week, but I think they’re a lower priority right now for me since there’s more momentum on other projects. At the very least, I need to reach out to collaborators and get this going again.

• Revise abstract
• Write discussion
• Write introduction