16S(11) •
ASCA(1) •
Acropora(3) •
Ahyacinthus(1) •
Bioinformatics(20) •
CITES(1) •
Carbohydrates(3) •
CellDensity(3) •
Cgigas(10) •
Chlorophyll(2) •
Conference(1) •
DVC(1) •
DataEntry(1) •
Education(1) •
Environmental(8) •
Enzymes(1) •
ExperimentalDesign(21) •
Extraction(2) •
GeneExpression(18) •
GenomeAnnotation(1) •
GitHub(1) •
Goals(34) •
Growth(28) •
Husbandry(40) •
ITS2(13) •
Immune(3) •
Integration(2) •
LarvalSize(2) •
LibraryPrep(1) •
Lipidomics(4) •
Lipids(4) •
Mcapitata(50) •
Metabolomics(13) •
Microscopy(2) •
Molecular(36) •
Multi omic(1) •
Multivariate(8) •
Outreach(1) •
Oyster(52) •
PCR(6) •
Pacuta(2) •
Permitting(1) •
Photophysiology(2) •
Physiology(12) •
Pocillopora(1) •
Processing(6) •
Protein(4) •
Protocol(33) •
R(44) •
RFLP(3) •
Reproduction(25) •
Resazurin(5) •
Respirometry(11) •
Sampling(15) •
Sanger(4) •
Settlement(4) •
StableIsotopes(8) •
StripSpawning(10) •
Survival(16) •
TPC(1) •
TidyTuesday(1) •
WGCNA(6) •
Writing(2)
16S 11
- 16S Pipeline in Mothur • January 12, 2022
- Analyzing 16S Mothur Results in R • January 31, 2022
- Comparing QIIME2 and Mothur 16S QC and Filtering • January 31, 2022
- ITS2 and 16s Extractions • December 22, 2021
- Mcapitata Development 16S Analysis - Mothur pipeline visualizations • December 13, 2022
- Mcapitata Development 16S Analysis Part 1 • December 27, 2021
- Mcapitata Development 16S Analysis Part 2 • December 28, 2021
- Mcapitata Development 16S Analysis in QIIME2 (Part 3) • December 30, 2021
- Putnam Lab Oyster 16S Analysis in Mothur • March 3, 2022
- Revising Figures for Mcapitata Development 2020 Project • December 14, 2022
- Transfer raw sequencing data to backup Andromeda folder • May 17, 2024
ASCA 1
Acropora 3
- Analyzing Acropora larval metabolism experiment respirometry data • November 29, 2022
- Moorea 2022 Coral Spawning and Field Expedition Daily Entry • November 9, 2022
- Moorea 2023 Symbiotic Nutritional Exchange Project Daily Entries • October 27, 2023
Ahyacinthus 1
- Ahyacinthus Early Life History Respirometry • November 20, 2020
Bioinformatics 20
- 16S Pipeline in Mothur • January 12, 2022
- Alignment and assembly of RNAseq reads for Montipora capitata larval thermal tolerance 2023 project • April 20, 2024
- Analyzing TagSeq data with new annotation • December 16, 2022
- Comparing QIIME2 and Mothur 16S QC and Filtering • January 31, 2022
- Comparing TagSeq between genome assembly V1 and V2 • February 9, 2022
- E5 Deep Dive RNAseq Count Matrix Analysis • March 15, 2023
- Hawaii 2023 Larval Tolerance project ITS2 Analysis Part 1 • June 10, 2024
- Mcapitata Development 16S Analysis Part 1 • December 27, 2021
- Mcapitata Development 16S Analysis Part 2 • December 28, 2021
- Mcapitata Development 16S Analysis in QIIME2 (Part 3) • December 30, 2021
- Mcapitata Development ITS2 Analysis Part 1 • December 29, 2021
- Mcapitata Development ITS2 Analysis Part 2 • December 29, 2021
- Putnam Lab Oyster 16S Analysis in Mothur • March 3, 2022
- QC of RNAseq files for Montipora capitata larval thermal tolerance 2023 project • February 23, 2024
- QC of top off RNAseq files for Montipora capitata larval thermal tolerance 2023 project • April 13, 2024
- Raw sequence downloads and NCBI SRA uploads for M. capitata larval thermal tolerance project • February 21, 2024
- Raw sequence downloads and NCBI SRA uploads for M. capitata larval thermal tolerance project top off sequencing second upload • April 12, 2024
- SRA Uploads 10 November 2022 • November 10, 2022
- Sanger Sequencing Training • June 2, 2023
- Symbiont gene expression in Mcap2020 developmental time series • November 28, 2022
CITES 1
- Process to apply for US CITES export permit • March 15, 2024
Carbohydrates 3
- Carbohydrates Protocol • April 8, 2022
- Mcapitata Larval Temperature Experiment Data Analysis • March 13, 2023
- Montipora capitata 2021 larval temperature experiment sample processing • April 8, 2022
CellDensity 3
- Mcapitata Larval Temperature Experiment Data Analysis • March 13, 2023
- Moorea 2022 Coral Spawning and Field Expedition Daily Entry • November 9, 2022
- Symbiont Cell Counts Protocol • April 8, 2022
Cgigas 10
- Analysis of Effort D oyster lab survival tests • October 8, 2024
- Analysis of Efforts BDE oyster lab survival tests • October 25, 2024
- Data entry for Goose Point data and schedule for incubations • September 13, 2024
- Initial analysis of resazurin metabolic rates in 10K Seed oysters • October 3, 2024
- Larval sampling at Point Whitney 10 October 2024 • October 10, 2024
- Larval sampling at Point Whitney 15 October • October 15, 2024
- Larval sampling at Point Whitney 21 October • October 21, 2024
- Point Whitney Field Day September 17 and 20 2024 • September 19, 2024
- Sampling 10K seed oyster project at UW • July 25, 2024
- Spawning at Point Whitney 7 October 2024 • October 7, 2024
Chlorophyll 2
- Chlorophyll Content Protocol • April 8, 2022
- Mcapitata Larval Temperature Experiment Data Analysis • March 13, 2023
Conference 1
- Washington Sea Grant Shellfish Growers Meeting Notes • March 11, 2024
DVC 1
- Intro to DVC Workshop • February 16, 2023
DataEntry 1
- Data entry for Goose Point data and schedule for incubations • September 13, 2024
Education 1
- Outreach event with Maritime High School Nov 12 2024 • November 12, 2024
Environmental 8
- Analyzing Environmental Data - Acropora larval metabolism 2022 • November 22, 2022
- E5 Environmental Timeseries Analysis Part 1 • November 15, 2021
- E5 Environmental Timeseries Analysis Part 2 • November 16, 2021
- E5 Environmental Timeseries Analysis Part 3 • November 18, 2021
- Mcapitata Larval Temperature Experiment Data Analysis • March 13, 2023
- Moorea 2022 Coral Spawning and Field Expedition Daily Entry • November 9, 2022
- Plotting temperature logger data for oyster field sites • October 2, 2024
- Point Whitney Field Day September 17 and 20 2024 • September 19, 2024
Enzymes 1
- Sampling 10K seed oyster project at UW • July 25, 2024
ExperimentalDesign 21
- Hatchery field day at Point Whitney April 3 2024 • April 3, 2024
- Hatchery field day at Point Whitney May 1 2024 • May 1, 2024
- Hatchery field day at Point Whitney May 22 2024 • May 22, 2024
- Hatchery field day at Point Whitney May 29 2024 • May 29, 2024
- Hatchery field day at Point Whitney May 6 2024 • May 6, 2024
- Hawaii 2023 Coral Spawning and Field Expedition Daily Entry • June 15, 2023
- Mcapitata Equipment Setup 2021 • September 1, 2021
- Mcapitata Temperature Exposure and Design June 2021 • September 1, 2021
- Moorea 2022 Coral Spawning and Field Expedition Daily Entry • November 9, 2022
- Moorea 2023 Symbiotic Nutritional Exchange Project Daily Entries • October 27, 2023
- Oyster USDA WSG Project Planning 5 Feb 2024 • February 5, 2024
- Oyster outplant overview • June 4, 2024
- Oyster ploidy results • May 13, 2024
- Oyster survival testing for lifestage carryover project • June 11, 2024
- Planning WSG USDA sample sizes and equipment for spring oyster rearing • February 2, 2024
- Pocillopora acuta Symbiont Integration Moorea December 2021 • December 22, 2021
- Point Whitney field day to start individual growth experiment and plan for new seed exposure work • March 5, 2024
- PolyIC Immune Priming Protocols • June 27, 2024
- Preparing Westcott outplants at Point Whitney on June 4 2024 • June 4, 2024
- Upcoming oyster projects and to do lists • June 4, 2024
Extraction 2
- Protocols used during URI 2024 visit • March 27, 2024
- UT Sydney processing for lipidomics and metabolomics for Hawaii 2023 project • April 19, 2024
GeneExpression 18
- Alignment and assembly of RNAseq reads for Montipora capitata larval thermal tolerance 2023 project • April 20, 2024
- Analyzing TagSeq data with new annotation • December 16, 2022
- Comparing TagSeq between genome assembly V1 and V2 • February 9, 2022
- DESeq LRT and Functional Enrichment Analysis of Mcap2020 TagSeq Data • June 26, 2024
- DESeq2 Analysis of Montipora capitata 2023 RNAseq data • May 7, 2024
- E5 Deep Dive RNAseq Count Matrix Analysis • March 15, 2023
- E5 Deep Dive RNAseq WGCNA Analysis • May 5, 2023
- Hawaii 2023 Coral Spawning and Field Expedition Daily Entry • June 15, 2023
- Mcapitata 2020 Early Life History Sample Processing • April 22, 2021
- QC of RNAseq files for Montipora capitata larval thermal tolerance 2023 project • February 23, 2024
- QC of top off RNAseq files for Montipora capitata larval thermal tolerance 2023 project • April 13, 2024
- Raw sequence downloads and NCBI SRA uploads for M. capitata larval thermal tolerance project • February 21, 2024
- Raw sequence downloads and NCBI SRA uploads for M. capitata larval thermal tolerance project top off sequencing second upload • April 12, 2024
- Revising Figures for Mcapitata Development 2020 Project • December 14, 2022
- Symbiont gene expression in Mcap2020 developmental time series • November 28, 2022
- Transfer raw sequencing data to backup Andromeda folder • May 17, 2024
- WGCNA Attempt 1 for ceabigr project exon expression data • February 8, 2024
- WGCNA Attempt 2 for ceabigr project exon expression data • February 27, 2024
GenomeAnnotation 1
- Analyzing TagSeq data with new annotation • December 16, 2022
GitHub 1
- 2023 UW Software Carpentry Workshop in Terminal Git and R • February 27, 2023
Goals 34
- April 2023 Goals • April 1, 2023
- April 2024 Goals • April 19, 2024
- August 2022 Goals • August 1, 2022
- August 2023 Goals • August 1, 2023
- August 2024 Goals • August 30, 2024
- December 2021 Goals • December 1, 2021
- December 2022 Goals • December 5, 2022
- December 2023 Goals • October 5, 2023
- February 2022 Goals • January 31, 2022
- February 2023 Goals • February 25, 2023
- February 2024 Goals • February 26, 2024
- January 2022 Goals • January 3, 2022
- January 2023 Goals • January 6, 2023
- January 2024 Goals • January 8, 2024
- July 2023 Goals • July 10, 2023
- July 2024 Goals • July 25, 2024
- June 2022 Goals • June 1, 2022
- June 2023 Goals • June 2, 2023
- June 2024 Goals • June 24, 2024
- March 2022 Goals • March 1, 2022
- March 2023 Goals • March 1, 2023
- March 2024 Goals • March 27, 2024
- May 2022 Goals • May 2, 2022
- May 2023 Goals • May 1, 2023
- May 2024 Goals • May 28, 2024
- November 2021 Goals • November 1, 2021
- November 2022 Goals • November 7, 2022
- November 2024 Goals • November 19, 2024
- October 2022 Goals • October 3, 2022
- October 2023 Goals • October 5, 2023
- October 2024 Goals • October 31, 2024
- September 2022 Goals • September 2, 2022
- September 2023 Goals • September 5, 2023
- September 2024 Goals • September 30, 2024
Growth 28
- Data entry for Goose Point data and schedule for incubations • September 13, 2024
- Field day at Point Whitney Aug 8 2024 • August 8, 2024
- Field day at Point Whitney July 10 2024 • July 10, 2024
- Field day at Point Whitney July 15 2024 • July 15, 2024
- Field day at Point Whitney June 12 2024 • June 13, 2024
- Field day at Point Whitney June 19 2024 • June 19, 2024
- Field day at Point Whitney June 28 2024 • June 28, 2024
- Field day at Point Whitney Preparing Outplants June 24 2024 • June 24, 2024
- Hatchery Day at Point Whitney to Check Lifestage Carryover Project • February 14, 2024
- Hatchery day at Point Whitney to continue seed stress exposures • March 19, 2024
- Hatchery field day at Point Whitney April 3 2024 • April 3, 2024
- Hatchery field day at Point Whitney May 1 2024 • May 1, 2024
- Hatchery field day at Point Whitney May 16 2024 • May 19, 2024
- Hatchery field day at Point Whitney May 22 2024 • May 22, 2024
- Hatchery field day at Point Whitney May 29 2024 • May 29, 2024
- Hatchery field day at Point Whitney May 6 2024 • May 6, 2024
- Outplanting oysters at Goose Point in Willapa Bay • June 25, 2024
- Oyster lifestage carryover project growth preliminary analysis • February 14, 2024
- Oyster outplant overview • June 4, 2024
- Oyster ploidy results • May 13, 2024
- Oyster survival testing for lifestage carryover project • June 11, 2024
- Point Whitney field day to start individual growth experiment and plan for new seed exposure work • March 5, 2024
- Preparing Westcott outplants at Point Whitney on June 4 2024 • June 4, 2024
- Prepping equipment and oysters for Lifestage Carryover project sampling day • February 26, 2024
- Spawning at Point Whitney June 13 2024 • June 14, 2024
- Survival and growth of oysters at Goose Point in Willapa Bay • September 9, 2024
- Upcoming oyster projects and to do lists • June 4, 2024
- WSG USDA Hatchery Day - Assessing lifestage carry over project • January 31, 2024
Husbandry 40
- Field day at Point Whitney Aug 8 2024 • August 8, 2024
- Field day at Point Whitney July 10 2024 • July 10, 2024
- Field day at Point Whitney July 15 2024 • July 15, 2024
- Field day at Point Whitney June 12 2024 • June 13, 2024
- Field day at Point Whitney June 19 2024 • June 19, 2024
- Field day at Point Whitney June 28 2024 • June 28, 2024
- Field day at Point Whitney Preparing Outplants June 24 2024 • June 24, 2024
- Hatchery Day at Point Whitney to Check Lifestage Carryover Project • February 14, 2024
- Hatchery day at Point Whitney to continue seed stress exposures • March 19, 2024
- Hatchery field day at Point Whitney April 3 2024 • April 3, 2024
- Hatchery field day at Point Whitney May 1 2024 • May 1, 2024
- Hatchery field day at Point Whitney May 16 2024 • May 19, 2024
- Hatchery field day at Point Whitney May 22 2024 • May 22, 2024
- Hatchery field day at Point Whitney May 29 2024 • May 29, 2024
- Hatchery field day at Point Whitney May 6 2024 • May 6, 2024
- Hawaii 2023 Coral Spawning and Field Expedition Daily Entry • June 15, 2023
- Larval Settlement Mcapitata June 2021 • September 2, 2021
- Larval sampling at Point Whitney 15 October • October 15, 2024
- Larval sampling at Point Whitney 21 October • October 21, 2024
- Lifestage Carryover Project Sampling • February 28, 2024
- Mcapitata Culture Maintenance June 2021 • September 1, 2021
- Mcapitata Larval Rearing and Settlement July 2020 • July 30, 2020
- Mcapitata Spawning and Fertilization July 2020 • July 20, 2020
- Mcapitata Spawning and Fertilization June 2021 • September 1, 2021
- Mcapitata Survival and Experiment Maintenance June 2021 • September 1, 2021
- Mcapitata Temperature Exposure and Design June 2021 • September 1, 2021
- Montipora capitata spawning and larval rearing protocol • July 20, 2022
- Moorea 2022 Coral Spawning and Field Expedition Daily Entry • November 9, 2022
- Outplanting oysters at Goose Point in Willapa Bay • June 25, 2024
- Oyster outplant overview • June 4, 2024
- Oyster ploidy results • May 13, 2024
- Oyster survival testing for lifestage carryover project • June 11, 2024
- Pocillopora Larval Collection June 2021 • September 2, 2021
- Point Whitney field day to start individual growth experiment and plan for new seed exposure work • March 5, 2024
- Preparing Westcott outplants at Point Whitney on June 4 2024 • June 4, 2024
- Prepping equipment and oysters for Lifestage Carryover project sampling day • February 26, 2024
- Spawning at Point Whitney June 13 2024 • June 14, 2024
- Survival and growth of oysters at Goose Point in Willapa Bay • September 9, 2024
- Upcoming oyster projects and to do lists • June 4, 2024
- WSG USDA Hatchery Day - Assessing lifestage carry over project • January 31, 2024
ITS2 13
- Correcting subsampling error in Mcap2020 ITS2 code and revise results • March 24, 2024
- Hawaii 2023 Larval Tolerance project ITS2 Analysis Part 1 • June 10, 2024
- ITS2 amplicon PCR and preparation for sequencing 20240326 • March 30, 2024
- ITS2 amplicon sequencing preparation protocol • April 1, 2024
- ITS2 and 16s Extractions • December 22, 2021
- KAPA bead clean-up protocol for removal of primer dimers from PCR product • April 1, 2024
- Mcapitata Development ITS2 Analysis Part 1 • December 29, 2021
- Mcapitata Development ITS2 Analysis Part 2 • December 29, 2021
- NCBI upload for Montipora capitata larval tolerance ITS2 sequences • June 11, 2024
- Protocols used during URI 2024 visit • March 27, 2024
- Revising Figures for Mcapitata Development 2020 Project • December 14, 2022
- Sequence depth subsampling test with Mcap2020 ITS2 dataset • March 26, 2024
- Transfer raw sequencing data to backup Andromeda folder • May 17, 2024
Immune 3
- Larval sampling at Point Whitney 10 October 2024 • October 10, 2024
- PolyIC Immune Priming Protocols • June 27, 2024
- Spawning at Point Whitney 7 October 2024 • October 7, 2024
Integration 2
- Ceabigr correlation matrices attempt • September 29, 2023
- Integrative analysis for Montipora capitata developmental time series • January 6, 2023
LarvalSize 2
- Larval Size Photographs Protocol • April 13, 2022
- Mcapitata Larval Temperature Experiment Data Analysis • March 13, 2023
LibraryPrep 1
- Protocols used during URI 2024 visit • March 27, 2024
Lipidomics 4
- E5 metabolomics and lipidomics tissue preps • November 20, 2024
- E5 molecular timeseries lipidomics test data analysis • October 14, 2024
- Preliminary lipidomic and metabolomics analysis of Hawaii 2023 larval data • September 30, 2024
- UT Sydney processing for lipidomics and metabolomics for Hawaii 2023 project • April 19, 2024
Lipids 4
- E5 molecular timeseries lipidomics test data analysis • October 14, 2024
- Hawaii 2023 Coral Spawning and Field Expedition Daily Entry • June 15, 2023
- Preliminary lipidomic and metabolomics analysis of Hawaii 2023 larval data • September 30, 2024
- UT Sydney processing for lipidomics and metabolomics for Hawaii 2023 project • April 19, 2024
Mcapitata 50
- 16S Pipeline in Mothur • January 12, 2022
- Alignment and assembly of RNAseq reads for Montipora capitata larval thermal tolerance 2023 project • April 20, 2024
- Analyzing 16S Mothur Results in R • January 31, 2022
- Analyzing TagSeq data with new annotation • December 16, 2022
- Comparing TagSeq between genome assembly V1 and V2 • February 9, 2022
- DESeq LRT and Functional Enrichment Analysis of Mcap2020 TagSeq Data • June 26, 2024
- DESeq2 Analysis of Montipora capitata 2023 RNAseq data • May 7, 2024
- F1F2 project data analysis Hawaii 2023 • July 31, 2023
- Hawaii 2023 Coral Spawning and Field Expedition Daily Entry • June 15, 2023
- Hawaii 2023 Larval Tolerance project ITS2 Analysis Part 1 • June 10, 2024
- ITS2 amplicon PCR and preparation for sequencing 20240326 • March 30, 2024
- ITS2 and 16s Extractions • December 22, 2021
- Integrative analysis for Montipora capitata developmental time series • January 6, 2023
- Isotope Time Series Data Collection June 2021 • September 2, 2021
- Larval Settlement Mcapitata June 2021 • September 2, 2021
- Mcap 2021 Stable Isotope Metabolomics Analysis • April 24, 2023
- Mcapitata 2020 Early Life History Sample Processing • April 22, 2021
- Mcapitata Baseline Sampling June 2021 • September 1, 2021
- Mcapitata Culture Maintenance June 2021 • September 1, 2021
- Mcapitata Development 16S Analysis - Mothur pipeline visualizations • December 13, 2022
- Mcapitata Development 16S Analysis Part 1 • December 27, 2021
- Mcapitata Development 16S Analysis Part 2 • December 28, 2021
- Mcapitata Development 16S Analysis in QIIME2 (Part 3) • December 30, 2021
- Mcapitata Development ITS2 Analysis Part 1 • December 29, 2021
- Mcapitata Development ITS2 Analysis Part 2 • December 29, 2021
- Mcapitata Early Life History Respirometry Protocol • July 30, 2020
- Mcapitata Equipment Setup 2021 • September 1, 2021
- Mcapitata July 2020 Embryo Larvae Recruit Sampling • July 30, 2020
- Mcapitata July 2020 Sampling Protocol • July 21, 2020
- Mcapitata Larval Rearing and Settlement July 2020 • July 30, 2020
- Mcapitata Larval Temperature Experiment Data Analysis • March 13, 2023
- Mcapitata Respiration and Photosynthesis Early Life History July 2020 • July 30, 2020
- Mcapitata Sampling and Data Collection June 2021 • September 1, 2021
- Mcapitata Spawning and Fertilization July 2020 • July 20, 2020
- Mcapitata Spawning and Fertilization June 2021 • September 1, 2021
- Mcapitata Survival and Experiment Maintenance June 2021 • September 1, 2021
- Mcapitata Temperature Exposure and Design June 2021 • September 1, 2021
- Metabolomics WGCNA Analysis Part 2 • January 25, 2022
- Montipora capitata 2021 larval temperature experiment sample processing • April 8, 2022
- Montipora capitata spawning and larval rearing protocol • July 20, 2022
- NCBI upload for Montipora capitata larval tolerance ITS2 sequences • June 11, 2024
- Preliminary lipidomic and metabolomics analysis of Hawaii 2023 larval data • September 30, 2024
- QC of RNAseq files for Montipora capitata larval thermal tolerance 2023 project • February 23, 2024
- QC of top off RNAseq files for Montipora capitata larval thermal tolerance 2023 project • April 13, 2024
- Raw sequence downloads and NCBI SRA uploads for M. capitata larval thermal tolerance project • February 21, 2024
- Raw sequence downloads and NCBI SRA uploads for M. capitata larval thermal tolerance project top off sequencing second upload • April 12, 2024
- Revising Figures for Mcapitata Development 2020 Project • December 14, 2022
- Sequence depth subsampling test with Mcap2020 ITS2 dataset • March 26, 2024
- Symbiont gene expression in Mcap2020 developmental time series • November 28, 2022
- UT Sydney processing for lipidomics and metabolomics for Hawaii 2023 project • April 19, 2024
Metabolomics 13
- E5 metabolomics and lipidomics tissue preps • November 20, 2024
- E5 molecular timeseries metabolomics test data analysis • November 4, 2024
- Mcap 2021 Stable Isotope Metabolomics Analysis • April 24, 2023
- Mcapitata 2020 Early Life History Sample Processing • April 22, 2021
- Metabolomics WGCNA Analysis Part 1 • November 13, 2021
- Metabolomics WGCNA Analysis Part 2 • January 25, 2022
- Montipora capitata 2021 larval temperature experiment sample processing • April 8, 2022
- Moorea 2022 Coral Spawning and Field Expedition Daily Entry • November 9, 2022
- Preliminary lipidomic and metabolomics analysis of Hawaii 2023 larval data • September 30, 2024
- Revising Figures for Mcapitata Development 2020 Project • December 14, 2022
- Stable Isotope Metabolomics Extraction Protocol • April 8, 2022
- Stable Isotope Metabolomics Larval Protocol • June 15, 2022
- UT Sydney processing for lipidomics and metabolomics for Hawaii 2023 project • April 19, 2024
Microscopy 2
- Larval Size Photographs Protocol • April 13, 2022
- Moorea 2022 Coral Spawning and Field Expedition Daily Entry • November 9, 2022
Molecular 36
- 16S Pipeline in Mothur • January 12, 2022
- Alignment and assembly of RNAseq reads for Montipora capitata larval thermal tolerance 2023 project • April 20, 2024
- Analyzing 16S Mothur Results in R • January 31, 2022
- Comparing QIIME2 and Mothur 16S QC and Filtering • January 31, 2022
- Comparing TagSeq between genome assembly V1 and V2 • February 9, 2022
- DESeq LRT and Functional Enrichment Analysis of Mcap2020 TagSeq Data • June 26, 2024
- DESeq2 Analysis of Montipora capitata 2023 RNAseq data • May 7, 2024
- E5 Deep Dive RNAseq WGCNA Analysis • May 5, 2023
- E5 POC and POR Species ID PCR and RFLPs • March 26, 2024
- Hawaii 2023 Coral Spawning and Field Expedition Daily Entry • June 15, 2023
- Hawaii 2023 Larval Tolerance project ITS2 Analysis Part 1 • June 10, 2024
- ITS2 amplicon PCR and preparation for sequencing 20240326 • March 30, 2024
- ITS2 amplicon sequencing preparation protocol • April 1, 2024
- ITS2 and 16s Extractions • December 22, 2021
- KAPA bead clean-up protocol for removal of primer dimers from PCR product • April 1, 2024
- Mcapitata 2020 Early Life History Sample Processing • April 22, 2021
- Mcapitata Development 16S Analysis - Mothur pipeline visualizations • December 13, 2022
- Mcapitata Development 16S Analysis Part 1 • December 27, 2021
- Mcapitata Development 16S Analysis Part 2 • December 28, 2021
- Mcapitata Development 16S Analysis in QIIME2 (Part 3) • December 30, 2021
- Mcapitata Development ITS2 Analysis Part 1 • December 29, 2021
- Mcapitata Development ITS2 Analysis Part 2 • December 29, 2021
- Moorea 2022 Coral Spawning and Field Expedition Daily Entry • November 9, 2022
- NCBI upload for Montipora capitata larval tolerance ITS2 sequences • June 11, 2024
- Pocillopora and Porites Species ID Sanger Sequencing and RFLP protocol • March 30, 2024
- Protocols used during URI 2024 visit • March 27, 2024
- Putnam Lab Oyster 16S Analysis in Mothur • March 3, 2022
- QC of RNAseq files for Montipora capitata larval thermal tolerance 2023 project • February 23, 2024
- QC of top off RNAseq files for Montipora capitata larval thermal tolerance 2023 project • April 13, 2024
- Raw sequence downloads and NCBI SRA uploads for M. capitata larval thermal tolerance project • February 21, 2024
- Raw sequence downloads and NCBI SRA uploads for M. capitata larval thermal tolerance project top off sequencing second upload • April 12, 2024
- Revising Figures for Mcapitata Development 2020 Project • December 14, 2022
- Sampling 10K seed oyster project at UW • July 25, 2024
- Sanger Sequencing Training • June 2, 2023
- Sequence depth subsampling test with Mcap2020 ITS2 dataset • March 26, 2024
- Symbiont gene expression in Mcap2020 developmental time series • November 28, 2022
Multi omic 1
- Multi-Omic Integration Analysis Part 1 • April 26, 2022
Multivariate 8
- Analysis of Variance Simultaneous Component Analyses ASCA for CEABIGR project • March 7, 2024
- E5 Multivariate Physiological Plasticity Analysis • September 1, 2022
- Generating physiology PC1 scores for timeseries molecular work • October 4, 2024
- Mcap 2021 Stable Isotope Metabolomics Analysis • April 24, 2023
- Preliminary lipidomic and metabolomics analysis of Hawaii 2023 larval data • September 30, 2024
- Revising E5 Time Series Multivariate Plasticity Analysis • March 16, 2023
- Revising E5 timeseries results - restructuring figures, filtering, and haplotypes • February 2, 2024
- Revising Figures for Mcapitata Development 2020 Project • December 14, 2022
Outreach 1
- Outreach event with Maritime High School Nov 12 2024 • November 12, 2024
Oyster 52
- 10K seed outplant at Baywater Shellfish • October 31, 2024
- 10K seed outplant preparations • October 30, 2024
- 10K seed resazurin survival analysis • August 16, 2024
- Analysis of Effort D oyster lab survival tests • October 8, 2024
- Analysis of Efforts BDE oyster lab survival tests • October 25, 2024
- Analysis of Variance Simultaneous Component Analyses ASCA for CEABIGR project • March 7, 2024
- Ceabigr correlation matrices attempt • September 29, 2023
- Data entry for Goose Point data and schedule for incubations • September 13, 2024
- Field day at Point Whitney Aug 8 2024 • August 8, 2024
- Field day at Point Whitney July 10 2024 • July 10, 2024
- Field day at Point Whitney July 15 2024 • July 15, 2024
- Field day at Point Whitney June 12 2024 • June 13, 2024
- Field day at Point Whitney June 19 2024 • June 19, 2024
- Field day at Point Whitney June 28 2024 • June 28, 2024
- Field day at Point Whitney Preparing Outplants June 24 2024 • June 24, 2024
- Hatchery Day at Point Whitney to Check Lifestage Carryover Project • February 14, 2024
- Hatchery day at Point Whitney to continue seed stress exposures • March 19, 2024
- Hatchery field day at Point Whitney April 3 2024 • April 3, 2024
- Hatchery field day at Point Whitney May 1 2024 • May 1, 2024
- Hatchery field day at Point Whitney May 16 2024 • May 19, 2024
- Hatchery field day at Point Whitney May 22 2024 • May 22, 2024
- Hatchery field day at Point Whitney May 29 2024 • May 29, 2024
- Hatchery field day at Point Whitney May 6 2024 • May 6, 2024
- Initial analysis of resazurin metabolic rates in 10K Seed oysters • October 3, 2024
- Larval rearing at Point Whitney • August 9, 2023
- Larval sampling at Point Whitney 10 October 2024 • October 10, 2024
- Larval sampling at Point Whitney 15 October • October 15, 2024
- Larval sampling at Point Whitney 21 October • October 21, 2024
- Lifestage Carryover Project Sampling • February 28, 2024
- Outplanting oysters at Goose Point in Willapa Bay • June 25, 2024
- Oyster USDA WSG Project Planning 5 Feb 2024 • February 5, 2024
- Oyster lifestage carryover project growth preliminary analysis • February 14, 2024
- Oyster outplant overview • June 4, 2024
- Oyster ploidy results • May 13, 2024
- Oyster survival testing for lifestage carryover project • June 11, 2024
- Planning WSG USDA sample sizes and equipment for spring oyster rearing • February 2, 2024
- Plotting temperature logger data for oyster field sites • October 2, 2024
- Point Whitney Field Day September 17 and 20 2024 • September 19, 2024
- Point Whitney field day to start individual growth experiment and plan for new seed exposure work • March 5, 2024
- PolyIC Immune Priming Protocols • June 27, 2024
- Preparing Westcott outplants at Point Whitney on June 4 2024 • June 4, 2024
- Prepping equipment and oysters for Lifestage Carryover project sampling day • February 26, 2024
- Sampling 10K seed oyster project at UW • July 25, 2024
- Spawning at Point Whitney 7 October 2024 • October 7, 2024
- Spawning at Point Whitney June 13 2024 • June 14, 2024
- Survival and growth of oysters at Goose Point in Willapa Bay • September 9, 2024
- Trial oyster strip spawning at Point Whitney • July 31, 2023
- Upcoming oyster projects and to do lists • June 4, 2024
- WGCNA Attempt 1 for ceabigr project exon expression data • February 8, 2024
- WGCNA Attempt 2 for ceabigr project exon expression data • February 27, 2024
- WSG USDA Hatchery Day - Assessing lifestage carry over project • January 31, 2024
- Washington Sea Grant Shellfish Growers Meeting Notes • March 11, 2024
PCR 6
- E5 POC and POR Species ID PCR and RFLPs • March 26, 2024
- ITS2 amplicon PCR and preparation for sequencing 20240326 • March 30, 2024
- ITS2 amplicon sequencing preparation protocol • April 1, 2024
- KAPA bead clean-up protocol for removal of primer dimers from PCR product • April 1, 2024
- Pocillopora and Porites Species ID Sanger Sequencing and RFLP protocol • March 30, 2024
- Protocols used during URI 2024 visit • March 27, 2024
Pacuta 2
- Pocillopora Larval Collection June 2021 • September 2, 2021
- Pocillopora acuta Symbiont Integration Moorea December 2021 • December 22, 2021
Permitting 1
- Process to apply for US CITES export permit • March 15, 2024
Photophysiology 2
- F1F2 project data analysis Hawaii 2023 • July 31, 2023
- Hawaii 2023 Coral Spawning and Field Expedition Daily Entry • June 15, 2023
Physiology 12
- Carbohydrates Protocol • April 8, 2022
- Chlorophyll Content Protocol • April 8, 2022
- E5 Multivariate Physiological Plasticity Analysis • September 1, 2022
- Generating physiology PC1 scores for timeseries molecular work • October 4, 2024
- Larval Size Photographs Protocol • April 13, 2022
- Mcapitata 2020 Early Life History Sample Processing • April 22, 2021
- Mcapitata Larval Temperature Experiment Data Analysis • March 13, 2023
- Montipora capitata 2021 larval temperature experiment sample processing • April 8, 2022
- Moorea 2023 Symbiotic Nutritional Exchange Project Daily Entries • October 27, 2023
- Protein Protocol • April 8, 2022
- Revising E5 Time Series Multivariate Plasticity Analysis • March 16, 2023
- Symbiont Cell Counts Protocol • April 8, 2022
Pocillopora 1
- Moorea 2023 Symbiotic Nutritional Exchange Project Daily Entries • October 27, 2023
Processing 6
- E5 metabolomics and lipidomics tissue preps • November 20, 2024
- ITS2 and 16s Extractions • December 22, 2021
- Mcapitata 2020 Early Life History Sample Processing • April 22, 2021
- Montipora capitata 2021 larval temperature experiment sample processing • April 8, 2022
- Moorea 2023 Symbiotic Nutritional Exchange Project Daily Entries • October 27, 2023
- UT Sydney processing for lipidomics and metabolomics for Hawaii 2023 project • April 19, 2024
Protein 4
- Mcapitata Larval Temperature Experiment Data Analysis • March 13, 2023
- Montipora capitata 2021 larval temperature experiment sample processing • April 8, 2022
- Protein Protocol • April 8, 2022
- UT Sydney processing for lipidomics and metabolomics for Hawaii 2023 project • April 19, 2024
Protocol 33
- 16S Pipeline in Mothur • January 12, 2022
- Analyzing 16S Mothur Results in R • January 31, 2022
- Carbohydrates Protocol • April 8, 2022
- Chlorophyll Content Protocol • April 8, 2022
- E5 POC and POR Species ID PCR and RFLPs • March 26, 2024
- Hawaii 2023 Coral Spawning and Field Expedition Daily Entry • June 15, 2023
- ITS2 and 16s Extractions • December 22, 2021
- KAPA bead clean-up protocol for removal of primer dimers from PCR product • April 1, 2024
- Larval Size Photographs Protocol • April 13, 2022
- Mcapitata 2020 Early Life History Sample Processing • April 22, 2021
- Mcapitata Development 16S Analysis Part 1 • December 27, 2021
- Mcapitata Development 16S Analysis Part 2 • December 28, 2021
- Mcapitata Development 16S Analysis in QIIME2 (Part 3) • December 30, 2021
- Mcapitata Development ITS2 Analysis Part 1 • December 29, 2021
- Mcapitata Development ITS2 Analysis Part 2 • December 29, 2021
- Mcapitata Early Life History Respirometry Protocol • July 30, 2020
- Mcapitata July 2020 Sampling Protocol • July 21, 2020
- Montipora capitata 2021 larval temperature experiment sample processing • April 8, 2022
- Montipora capitata spawning and larval rearing protocol • July 20, 2022
- Moorea 2022 Coral Spawning and Field Expedition Daily Entry • November 9, 2022
- Moorea 2023 Symbiotic Nutritional Exchange Project Daily Entries • October 27, 2023
- Pocillopora acuta Symbiont Integration Moorea December 2021 • December 22, 2021
- Pocillopora and Porites Species ID Sanger Sequencing and RFLP protocol • March 30, 2024
- Protein Protocol • April 8, 2022
- Protocols used during URI 2024 visit • March 27, 2024
- SDR Microplate Respirometry Protocol • June 15, 2023
- SRA Uploads 10 November 2022 • November 10, 2022
- Spawning at Point Whitney June 13 2024 • June 14, 2024
- Stable Isotope Metabolomics Extraction Protocol • April 8, 2022
- Stable Isotope Metabolomics Larval Protocol • June 15, 2022
- Symbiont Cell Counts Protocol • April 8, 2022
R 44
- 10K seed outplant at Baywater Shellfish • October 31, 2024
- 10K seed outplant preparations • October 30, 2024
- 10K seed resazurin survival analysis • August 16, 2024
- 16S Pipeline in Mothur • January 12, 2022
- 2023 UW Software Carpentry Workshop in Terminal Git and R • February 27, 2023
- Analysis of Effort D oyster lab survival tests • October 8, 2024
- Analysis of Efforts BDE oyster lab survival tests • October 25, 2024
- Analysis of Variance Simultaneous Component Analyses ASCA for CEABIGR project • March 7, 2024
- Analyzing 16S Mothur Results in R • January 31, 2022
- Analyzing Acropora larval metabolism experiment respirometry data • November 29, 2022
- Analyzing Environmental Data - Acropora larval metabolism 2022 • November 22, 2022
- Analyzing TagSeq data with new annotation • December 16, 2022
- Ceabigr correlation matrices attempt • September 29, 2023
- Comparing TagSeq between genome assembly V1 and V2 • February 9, 2022
- Correcting subsampling error in Mcap2020 ITS2 code and revise results • March 24, 2024
- DESeq LRT and Functional Enrichment Analysis of Mcap2020 TagSeq Data • June 26, 2024
- DESeq2 Analysis of Montipora capitata 2023 RNAseq data • May 7, 2024
- E5 Deep Dive RNAseq WGCNA Analysis • May 5, 2023
- E5 Environmental Timeseries Analysis Part 1 • November 15, 2021
- E5 Environmental Timeseries Analysis Part 2 • November 16, 2021
- E5 Environmental Timeseries Analysis Part 3 • November 18, 2021
- E5 Multivariate Physiological Plasticity Analysis • September 1, 2022
- E5 Time Series Data QC • November 17, 2021
- E5 molecular timeseries lipidomics test data analysis • October 14, 2024
- F1F2 project data analysis Hawaii 2023 • July 31, 2023
- Generating physiology PC1 scores for timeseries molecular work • October 4, 2024
- Initial analysis of resazurin metabolic rates in 10K Seed oysters • October 3, 2024
- Integrative analysis for Montipora capitata developmental time series • January 6, 2023
- Mcap 2021 Stable Isotope Metabolomics Analysis • April 24, 2023
- Mcapitata Development 16S Analysis - Mothur pipeline visualizations • December 13, 2022
- Mcapitata Larval Temperature Experiment Data Analysis • March 13, 2023
- Metabolomics WGCNA Analysis Part 1 • November 13, 2021
- Metabolomics WGCNA Analysis Part 2 • January 25, 2022
- Multi-Omic Integration Analysis Part 1 • April 26, 2022
- Oyster lifestage carryover project growth preliminary analysis • February 14, 2024
- Plotting temperature logger data for oyster field sites • October 2, 2024
- Preliminary lipidomic and metabolomics analysis of Hawaii 2023 larval data • September 30, 2024
- Revising E5 Time Series Multivariate Plasticity Analysis • March 16, 2023
- Revising E5 timeseries results - restructuring figures, filtering, and haplotypes • February 2, 2024
- Revising Figures for Mcapitata Development 2020 Project • December 14, 2022
- Sequence depth subsampling test with Mcap2020 ITS2 dataset • March 26, 2024
- TidyTuesday Exercises • February 10, 2023
- WGCNA Attempt 1 for ceabigr project exon expression data • February 8, 2024
- WGCNA Attempt 2 for ceabigr project exon expression data • February 27, 2024
RFLP 3
- E5 POC and POR Species ID PCR and RFLPs • March 26, 2024
- Pocillopora and Porites Species ID Sanger Sequencing and RFLP protocol • March 30, 2024
- Protocols used during URI 2024 visit • March 27, 2024
Reproduction 25
- Ahyacinthus Early Life History Respirometry • November 20, 2020
- Field day at Point Whitney June 19 2024 • June 19, 2024
- Field day at Point Whitney Preparing Outplants June 24 2024 • June 24, 2024
- Hawaii 2023 Coral Spawning and Field Expedition Daily Entry • June 15, 2023
- Larval rearing at Point Whitney • August 9, 2023
- Larval sampling at Point Whitney 10 October 2024 • October 10, 2024
- Larval sampling at Point Whitney 15 October • October 15, 2024
- Larval sampling at Point Whitney 21 October • October 21, 2024
- Mcapitata Culture Maintenance June 2021 • September 1, 2021
- Mcapitata Early Life History Respirometry Protocol • July 30, 2020
- Mcapitata Equipment Setup 2021 • September 1, 2021
- Mcapitata July 2020 Embryo Larvae Recruit Sampling • July 30, 2020
- Mcapitata July 2020 Sampling Protocol • July 21, 2020
- Mcapitata Larval Rearing and Settlement July 2020 • July 30, 2020
- Mcapitata Respiration and Photosynthesis Early Life History July 2020 • July 30, 2020
- Mcapitata Spawning and Fertilization July 2020 • July 20, 2020
- Mcapitata Spawning and Fertilization June 2021 • September 1, 2021
- Montipora capitata spawning and larval rearing protocol • July 20, 2022
- Moorea 2022 Coral Spawning and Field Expedition Daily Entry • November 9, 2022
- Moorea 2023 Symbiotic Nutritional Exchange Project Daily Entries • October 27, 2023
- Pocillopora Larval Collection June 2021 • September 2, 2021
- Pocillopora acuta Symbiont Integration Moorea December 2021 • December 22, 2021
- Spawning at Point Whitney 7 October 2024 • October 7, 2024
- Spawning at Point Whitney June 13 2024 • June 14, 2024
- Trial oyster strip spawning at Point Whitney • July 31, 2023
Resazurin 5
- 10K seed outplant at Baywater Shellfish • October 31, 2024
- 10K seed outplant preparations • October 30, 2024
- 10K seed resazurin survival analysis • August 16, 2024
- Initial analysis of resazurin metabolic rates in 10K Seed oysters • October 3, 2024
- Sampling 10K seed oyster project at UW • July 25, 2024
Respirometry 11
- Ahyacinthus Early Life History Respirometry • November 20, 2020
- Analyzing Acropora larval metabolism experiment respirometry data • November 29, 2022
- F1F2 project data analysis Hawaii 2023 • July 31, 2023
- Mcapitata Early Life History Respirometry Protocol • July 30, 2020
- Mcapitata Larval Temperature Experiment Data Analysis • March 13, 2023
- Mcapitata Respiration and Photosynthesis Early Life History July 2020 • July 30, 2020
- Mcapitata Sampling and Data Collection June 2021 • September 1, 2021
- Moorea 2023 Symbiotic Nutritional Exchange Project Daily Entries • October 27, 2023
- Pocillopora acuta Symbiont Integration Moorea December 2021 • December 22, 2021
- Revising Figures for Mcapitata Development 2020 Project • December 14, 2022
- SDR Microplate Respirometry Protocol • June 15, 2023
Sampling 15
- Ahyacinthus Early Life History Respirometry • November 20, 2020
- Hawaii 2023 Coral Spawning and Field Expedition Daily Entry • June 15, 2023
- Isotope Time Series Data Collection June 2021 • September 2, 2021
- Lifestage Carryover Project Sampling • February 28, 2024
- Mcapitata Baseline Sampling June 2021 • September 1, 2021
- Mcapitata Early Life History Respirometry Protocol • July 30, 2020
- Mcapitata July 2020 Embryo Larvae Recruit Sampling • July 30, 2020
- Mcapitata July 2020 Sampling Protocol • July 21, 2020
- Mcapitata Respiration and Photosynthesis Early Life History July 2020 • July 30, 2020
- Mcapitata Sampling and Data Collection June 2021 • September 1, 2021
- Mcapitata Survival and Experiment Maintenance June 2021 • September 1, 2021
- Moorea 2022 Coral Spawning and Field Expedition Daily Entry • November 9, 2022
- Moorea 2023 Symbiotic Nutritional Exchange Project Daily Entries • October 27, 2023
- Pocillopora acuta Symbiont Integration Moorea December 2021 • December 22, 2021
- Sampling 10K seed oyster project at UW • July 25, 2024
Sanger 4
- E5 POC and POR Species ID PCR and RFLPs • March 26, 2024
- Pocillopora and Porites Species ID Sanger Sequencing and RFLP protocol • March 30, 2024
- Protocols used during URI 2024 visit • March 27, 2024
- Sanger Sequencing Training • June 2, 2023
Settlement 4
- Larval Settlement Mcapitata June 2021 • September 2, 2021
- Mcapitata Larval Temperature Experiment Data Analysis • March 13, 2023
- Montipora capitata spawning and larval rearing protocol • July 20, 2022
- Moorea 2022 Coral Spawning and Field Expedition Daily Entry • November 9, 2022
StableIsotopes 8
- Isotope Time Series Data Collection June 2021 • September 2, 2021
- Mcap 2021 Stable Isotope Metabolomics Analysis • April 24, 2023
- Mcapitata Sampling and Data Collection June 2021 • September 1, 2021
- Montipora capitata 2021 larval temperature experiment sample processing • April 8, 2022
- Moorea 2023 Symbiotic Nutritional Exchange Project Daily Entries • October 27, 2023
- Pocillopora acuta Symbiont Integration Moorea December 2021 • December 22, 2021
- Stable Isotope Metabolomics Extraction Protocol • April 8, 2022
- Stable Isotope Metabolomics Larval Protocol • June 15, 2022
StripSpawning 10
- Field day at Point Whitney June 19 2024 • June 19, 2024
- Field day at Point Whitney Preparing Outplants June 24 2024 • June 24, 2024
- Larval rearing at Point Whitney • August 9, 2023
- Larval sampling at Point Whitney 10 October 2024 • October 10, 2024
- Larval sampling at Point Whitney 15 October • October 15, 2024
- Larval sampling at Point Whitney 21 October • October 21, 2024
- Point Whitney Field Day September 17 and 20 2024 • September 19, 2024
- Spawning at Point Whitney 7 October 2024 • October 7, 2024
- Spawning at Point Whitney June 13 2024 • June 14, 2024
- Trial oyster strip spawning at Point Whitney • July 31, 2023
Survival 16
- 10K seed outplant at Baywater Shellfish • October 31, 2024
- 10K seed outplant preparations • October 30, 2024
- 10K seed resazurin survival analysis • August 16, 2024
- Analysis of Effort D oyster lab survival tests • October 8, 2024
- Analysis of Efforts BDE oyster lab survival tests • October 25, 2024
- Data entry for Goose Point data and schedule for incubations • September 13, 2024
- Hatchery Day at Point Whitney to Check Lifestage Carryover Project • February 14, 2024
- Hatchery day at Point Whitney to continue seed stress exposures • March 19, 2024
- Initial analysis of resazurin metabolic rates in 10K Seed oysters • October 3, 2024
- Lifestage Carryover Project Sampling • February 28, 2024
- Mcapitata Larval Temperature Experiment Data Analysis • March 13, 2023
- Point Whitney Field Day September 17 and 20 2024 • September 19, 2024
- Point Whitney field day to start individual growth experiment and plan for new seed exposure work • March 5, 2024
- Prepping equipment and oysters for Lifestage Carryover project sampling day • February 26, 2024
- Sampling 10K seed oyster project at UW • July 25, 2024
- WSG USDA Hatchery Day - Assessing lifestage carry over project • January 31, 2024
TPC 1
- Hawaii 2023 Coral Spawning and Field Expedition Daily Entry • June 15, 2023
TidyTuesday 1
- TidyTuesday Exercises • February 10, 2023
WGCNA 6
- E5 Deep Dive RNAseq WGCNA Analysis • May 5, 2023
- Metabolomics WGCNA Analysis Part 1 • November 13, 2021
- Metabolomics WGCNA Analysis Part 2 • January 25, 2022
- Revising Figures for Mcapitata Development 2020 Project • December 14, 2022
- WGCNA Attempt 1 for ceabigr project exon expression data • February 8, 2024
- WGCNA Attempt 2 for ceabigr project exon expression data • February 27, 2024
Writing 2
- Revising E5 timeseries results - restructuring figures, filtering, and haplotypes • February 2, 2024
- Writing updates • November 5, 2024