This post lists all my ongoing projects and to-do list.

Mcap 2020

Pre-accepted!

• Final revisions

Hawaii 2023

Analysis and writing

• Process all samples for larval symbiont cell density in the lab at UW
• Revise analysis of rapid light curves from phenoplate data and send results to UTS collaborators
• Analyze larval size and symbiont cell density data
• Finalize RNAseq differential gene expression and functional enrichment analyses
• Finalize ITS2 analysis
• Revise lipidomic analyses for differential lipids and SAM modeling methods
• Finalize metabolomics analysis
• Conduct WGCNA correlation analyses between lipidomic and RNAseq datasets across temperature, parental phenotypes, and ITS2
• Conduct WGCNA correlation analyses of lipid and RNAseq datasets across parental phenotypes, symbiont cell density, phenoplate metrics, and ITS2
• Storyboard manuscript with collaborators
• Finalize methods section

Moorea 2023

Data collection and analysis

• Process/submit samples for RNAseq
• Process/submit samples for Metabolomics
• Update methods section
• ITS2 sequencing analysis

E5 Physiology

Final manuscript

• Finish writing discussion section
• Send draft of full manuscript to coauthors
• Revise manuscript and post on bioRxiv
• Submit manuscript

E5 Molecular

Data analysis

• Examine neural networks and SEM modeling for time series multiomic modeling analyses
• Analyze lipid data
• Analyze metabolite data
• Multiomic WGCNA analyses
• Machine learning multiomic prediction analyses
• Energy state analysis

E5 Nom Nom

Data analysis

• Analyze PR rates data set

Resazurin methods manuscript

Analysis and writing

• Analyze USDA families resazurin response
• Include: 10K seed, PolyIC seed, USDA families
• Reach out for oxygen validation data with Louis at USDA
• Introduction
• Methods
• Results
• Discussion

Oyster 2024 Stress Hardening

Data collection and analysis

• Goose Point
  • Measure size of December 2024 oysters from images (Noah K. in progress) and analyze
• Point Whitney
  • Conduct spring assessment of Efforts siblings outplanted at Point Whitney
• Goose Point
  • Conduct spring assessment of Efforts oysters outplanted
• Baywater
  • Conduct spring assessment of 10K oysters outplanted
• Westcott
  • Conduct spring assessment of Efforts oysters outplanted

Oyster Lifestage Carry Over

Analysis and writing

• Analyze next set of qPCR
• Storyboard manuscript
• Analyze final time point growth data
• Organize GitHub repository
• Introduction
• Methods
• Results
• Discussion

10K Seed

Data collection and analysis

• Conduct spring growth and survival of outplants at Baywater shellfish
• Pending outplant data, storyboard potential manuscripts or additional analyses

PolyIC Larvae

Data collection and experiments

• Measure size from December, January, February images for growth (Madeline)
• RNA extractions and RNAseq analyses (on hold)

Oyster 2025 Stress Hardening

Planning

• Design spring-summer oyster stress hardening projects to include heat and aerial exposure treatments

Planning and funding

• BIO-OCE submission with Hollie (July/August 2025)
• Perspectives manuscript with Yaamini
• WSG 2025 proposal
• WSG 2025 annual report

Outreach and education

• Create and publish Reva Atea spring issue of communications magazine