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Hilary Starks wrote a new post, M2W FK Library prep, 6-14-17, on the site COS eDNA lab notebook 8 hours, 34 minutes ago
KAPA Hyper Prep Kit – 250 ng per library (1 library)1) End Repair and A-tailing
Qubit concentration of DNA pool: 23.7 ng/ul
Library: M2W-FK-6
ER and AT Buffer […]
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Hilary Starks wrote a new post, M2W FK Sequencing pool, 6-14-17, on the site COS eDNA lab notebook 8 hours, 38 minutes ago
Prepared the pool of all samples (tagged pcr product) that will be prepped into a library for sequencing.Link to excel spreadsheet below.
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Sam White wrote a new post, GitHub Curation, on the site Sam's Notebook 1 day, 8 hours ago
Updated a couple of GitHub Wikis:
Created a new repo in the RobertsLab Organization GitHub account with a wiki to provide an overview of how to use of Hyak (mox) computing node. This was lightly modified […]
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Chris Hartgerink wrote a new post, Validly closed data must be secured, on the site Chris H.J. Hartgerink's Notebook 3 days, 21 hours ago
tl;dr if you cannot share your data due to valid reasons, simply not sharing is insufficient if you don’t also create a way to keep those data secure.
I am a big proponent of publicly sharing data (skip the […]
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Sam White wrote a new post, qPCR – Ava’s RLO Transmission Samples, on the site Sam's Notebook 4 days, 6 hours ago
Ran qPCRs on samples extracted earlier today. Also re-ran samples 15:08-29 and 15:09-145, per Ava’s request.Standard curve was p18RK7 from 20161128.
All samples were run in duplicate.
Master mix calcs are here […]
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Sam White wrote a new post, DNA Extraction – Ava Withering Syndrome Transmission Study Tissues, on the site Sam's Notebook 4 days, 7 hours ago
Isolated DNA from 19 red abalone digestive gland tissue samples.
Tissue was weighed and then DNA extracted.
DNA was extracted using the QIAmp Fast DNA Stool Mini Kit (Qiagen) following the manufacturer’s […]
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Sam White wrote a new post, Goals – June 2017, on the site Sam's Notebook 3 weeks, 1 day ago
Well, my previous goal was to tidy up an existing manuscript and get it re-submitted to PeerJ. That’s pretty much done, as Steven will be giving a final once over and formatting the rebuttal letter prior to […]
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Hilary Starks wrote a new post, M2W FK tagged pcr of NTC pools, 5-16-17, on the site COS eDNA lab notebook 1 month, 1 week ago
Made three different pools of all 61 NTCs (pool-1: ntc 1-20; pool-2: ntc 21-40; pool-3: ntc 41-61) and then performed tagged pcr using each pool as template. These products will be added to the sequencing […] -
Hilary Starks wrote a new post, M2W FK untagged and tagged pcr re-runs, 5-11-17, on the site COS eDNA lab notebook 1 month, 1 week ago
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Sam White wrote a new post, DNA Methylation Quantification – Acropora cervicornis (Staghorn coral) DNA from Javier Casariego (FIU), on the site Sam's Notebook 1 month, 1 week ago
Used the MethylFlash Methylated DNA Quantification Kit (Colorimetric) from Epigentek to quantify methylation in these coral DNA samples.
All samples were run in duplicate <em>except</em> 2h Block 1 due to […]
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Hilary Starks wrote a new post, M2W FK tagged pcr for potential technical replicates, 5-9-17, on the site COS eDNA lab notebook 1 month, 1 week ago
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Hilary Starks wrote a new post, M2W FK PCR re-runs, 4-24-17, on the site COS eDNA lab notebook 1 month, 1 week ago
Re-ran 299 (both untagged and tagged) to get target product. In case I did not get target product, I also ran two untagged pcrs for 298 the filter replicate of 299 since I got target product for 298 […] -
Hilary Starks wrote a new post, M2W FK PCR reruns (untagged and tagged), 4-21-17, on the site COS eDNA lab notebook 1 month, 1 week ago
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Sam White wrote a new post, DNA Quantification – Acropora cervicornis (Staghorn coral) DNA from Javier Casariego (FIU), on the site Sam's Notebook 1 month, 1 week ago
I quantified the three samples (listed below) that I SpeedVac’d yesterday using the the Roberts Lab Qubit 3.0.
- 2h Block 1
- 2h Block 8
- D35 Block 8
Quantification was performed using the dsDNA Broad […]
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Sam White wrote a new post, DNA Concentration – Acropora cervicornis (Staghorn coral) DNA from Javier Casariego (FIU), on the site Sam's Notebook 1 month, 2 weeks ago
Three samples (of the 62 total) that were quantified earlier today, had concentrations too low for use in the methylation assay:
- 2h Block 1
- 2h Block 8
- D35 Block 8
These samples were dried to […]
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Sam White wrote a new post, DNA Quantification – Acropora cervicornis (Staghorn coral) DNA from Javier Casariego (FIU), on the site Sam's Notebook 1 month, 2 weeks ago
DNA samples received yesterday were quantified using the Roberts Lab Qubit 3.0 to improve quantification accuracy (samples provided by Javier were quantified via NanoDrop, which generally overestimates DNA […]
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Sam White wrote a new post, qPCR – Ava’s RLO Transmission Samples, on the site Sam's Notebook 1 month, 2 weeks ago
Ran qPCRs on the DNA I extracted on 20170504 and earlier today.
The full list of samples is here (Google Sheet): 20170502_Ava_Ab_List
Standard curve was p18RK7 from 20161128.
All samples were run in […]
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Sam White wrote a new post, DNA Quantification – Ava’s RLO Transmission DNA, on the site Sam's Notebook 1 month, 2 weeks ago
Quantified the DNA I isolated on 20170504 and earlier today using the Roberts Lab’s Qubit 3.0 and the dsDNA Broad Range assay.
Used 1uL of each sample.
Results:
The following samples were below the level of […]
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Sam White wrote a new post, DNA Extraction – Ava Withering Syndrome Transmission Study Tissues, on the site Sam's Notebook 1 month, 2 weeks ago
Isolated DNA from five tissue samples.
Tissue was weighed and then DNA extracted.
DNA was extracted using the QIAmp Fast DNA Stool Mini Kit (Qiagen) following the manufacturer’s protocol with the following […]
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Sam White wrote a new post, Samples Received – Olympia oyster Histology Blocks and Slides (for Laura Spencer), on the site Sam's Notebook 1 month, 2 weeks ago
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