Revisiting master plan of what the next year looks like. Featuring thoughts for final chapter plan, proposal and bypass timeline, as well as target funding opportunities.

November (FISH 250 TA)

Scheduling committee meeting in January/February

  • Moving this from the originally projected Nov/Dec plan to give me enough time to write masters proposal (first 2 chapters for bypass proposal)

Masters proposal

  • Significant progress on masters proposal. My first two chapters are Eastern oyster + OA lncRNAs and a synthesis of coral lncRNA work from E5 descriptive and expression manuscripts.

Olympia Oyster Work Planning

  • Solidify plans with Mac on how Winter quarter work will go. Emphasize chapter worthy work and potential for LC-WGS with $5000 SAFS research grant. Continue working with Evelyn on currently available RADSeq data.

Eastern oyster + OA lncRNAs chapter

  • Finish final analyses (summarize blast results and complete WGCNA).

December (FISH 250 TA)

Masters proposal

  • Complete masters proposal by mid December and send out to committee so they have enough time to review before next committee meeting

Status and Bypass Plan Slides

  • Prep slides for committee meeting. This will include the content covered in the masters proposal as well as an additional 2 chapters focused on population genetics modeling. (1) Olympia oyster pop gen with improved environmental covariates and (2) re-run of the same model with geoduck and different management scenarios between regions.

Oly pop gen project development

  • Meet with Eric Ward to scope out Olympia oyster and geoduck pop gen chapters. Have him review slides for committee meeting.

Eastern oyster + OA lncRNAs chapter rough draft

  • Complete full rough raft for review by Steven, committee, Yaamini, and Ariana.

January (CICOES Fellowship)

Committee meeting

  • Obtain feedback on research plan and bypass timeline. Float the idea of adding Eric Ward or Mark Schurell to committee for stats experience.

Schedule bypass meeting

  • Will need to be by May 15.

Olympia Oyster Work with Mac

  • Devote most of research time to NOAA/PSRF Oly pop gen work and getting in touch with Julieta Martinelli and Ryan Crim. Basically continue working with Evelyn.

NW CASC Fellowship App

  • Revisit prior year’s application and get feedback from Eric Ward.

Eastern oyster + OA lncRNAs chapter final draft

  • Incorporate edits and prepare for publication.

February (CICOES Fellowship)

Oly Pop Gen

  • Determine full scope of publishable work for CICOES funding. Start incorporating specifics into 3rd chapter.

Complete NW CASC Fellowship app

  • Send to Steven and committee for feedback. Obtain letters of support from WDFW and/or PSRF. Have ready to submit by Feb/March deadline (not yet announced).

Eastern oyster + OA lncRNAs chapter submit

  • Submit manuscript for publication.

March (CICOES Fellowship)

Bypass Proposal

  • Write up additional proposal content for last two chapters of proposal. And send to committee as soon as possible for feedback.

Wrap up intensive quarter with NOAA/PSRF

  • Solidify next steps and determine actionable work to include in a chapter.

Bypass meeting scheduled

  • Finalize bypass meeting date and time.

April (FISH 497 TA)

Bypass proposal and slides

  • Incorporate bypass proposal feedback, finish application, and finalize slides for meeting.

SAFS Research Grant Sequencing

  • Submit LC-WGBS samples of oysters either from PSRF or Steven.

Oly pop gen and modeling

  • Create outline for chapter incorporating CICOES quarter work with planned Oly pop gen modeling.

May (FISH 497 TA)

Final bypass app meeting

  • Present bypass package to committe and obtain signatures from all committe members to submit by May 15.

Oly pop gen and modeling

  • Have the model up and running on my own computing resources by the end of the month. Wrap any lingering pop gen analysis with existing pipelines.

Tentatively schedule quals

  • Check-in with committee to see if a week in August/September will work.

June (FISH 497 TA/Sea Grant)

Oly pop gen modeling time series

  • Start time series analysis for relevant environmental parameters to be included in model. Meet with Eric Ward and Mark Schurell to make sure I have the correct pipelines.

Finalize quals date and time

  • Confirm date and timing with committee and collect recommended literature to review before exam.

Quals prep

  • Read read read

July (Sea Grant)

Crab team busy season

  • Lots of time devoted to field support and data management

Quals prep

  • Read read read

August (Sea Grant)

Crab team busy season

  • Lots of time devoted to field support and data management

Quals prep and exam

  • Read read read. Exam may be toward the end of this month.

September (Sea Grant)

Quals prep and exam

  • Read read read. Exam may be sometime this month.

Oly pop gen modeling time series

  • Complete rough draft of time series analyses for review by Mark and Eric.

Crab Team summer wrap up

  • Wrap up full time summer work with Crab Team

Background Activities

These are the tasks and activities I have not included in the overall timeline.

E5 descriptive and expression

  • Will continue working with group on lncRNA side of things to round out a chapter that examines lncRNA characteristics and expression patters. All work to be incorporated into exisiting E5 publication plans.

AI in Bioinformatics and Environmental Data Science

  • Applied for the NCEAS Environmental Data Science Summit focused on AI in February. Hoping to get more involved with Steven’s AI work.

WSG Crab Team Data Publictation and Analysis

  • Helping crab team publish data. Scoping potential projects to see if there is anything available to me that is worthwhile. Meeting with Carolyn soon to discuss pop gen work.