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Sam White
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Sam White

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Isolated DNA from 4 fecal samples provided by Ava. Fecal samples were on filters stored at -80C. Samples were thawed slightly to allow unrolling of the filters. Feces was transferred to pre-weighed tubes and then weighed. DNA was extracted using the QIAmp…
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Sam White

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Submitted the following manuscript to PeerJ for peer review:   “Differential response to stress in Ostrea lurida (Carpenter 1864) as measured by gene expression”   The pre-print version can be viewed here: https://peerj.com/preprints/1595/
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Sam White

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Isolated DNA from 35 tissue samples provided by Ava. Presumably, the tissues were digestive gland and I believe they were preserved in ethanol. The list of samples are listed below. DNA was extracted using the QIAmp Fast DNA Stool Mini Kit (Qiagen)…
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DNA samples from yesterday and this morning were quantified using the Roberts Lab Qubit 3.0 (Life Technologies) using the Qubit ds DNA BR reagents. Used 1μL of each sample. Results: Raw Qubit readout (Google Sheet): 20160810_DNA_quant_Qubit_Ava_abalone_WS…
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Sam White

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Isolated DNA from 20 tissue samples provided by Ava. Presumably, the tissues were digestive gland and I believe they were preserved in ethanol. The list of samples are listed below. DNA was extracted using the QIAmp Fast DNA Stool Mini Kit (Qiagen)…
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Complete Olympia oyster GBS data analysis – Progress has actually been made! After many struggles, I managed to get a PyRad analysis of the entire data set to complete. Now, I just have to figure out what to do with the output files… Troubleshoot Stacks…
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Sam White

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Noticed that Owl (Synology DS1812+ server) was beeping. I also noticed, just like the last time we had to replace a HDD in Owl, that I didn’t receive a notification email… As it turns out, this time the reason no notification email was received was due to…
Noticed that Owl (Synology DS1812+ server) was beeping. I also noticed, just like the last time we had to replace a HDD in Owl, that I didn't receive a notification email... As it turns out, this t...
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DNA was extracted from filters using the Qiagen DNeasy Blood & Tissue Kit (spin column protocol). Filters were incubated in 400uL of Buffer AL (twice the volume in the Qiagen protocol in order to completely coat the filters) and 50uL of Proteinase K…
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After some basal readings about what Fst is (see notebook below for a definition and reference), I decided to try to use fastStructure to analyze the PyRAD output from 20160727. The quick, TL;DR: after spending a bunch of time installing the program, it…
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Sam White

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Isolated DNA from 30 tissue samples provided by Ava. Presumably, the tissues were digestive gland and I believe they were preserved in ethanol. The list of samples are listed below. DNA was extracted using the QIAmp Fast DNA Stool Mini Kit (Qiagen)…
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Sam White

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I recently moved some computing jobs over to Amazon’s Elastic Cloud Computing (EC2) in attempt to avoid some odd computing issues/errors I kept encountering on our lab computers (Apple Xserve 3,1). The big trade off here is that the lab computers are paid…
I recently moved some computing jobs over to Amazon's Elastic Cloud Computing (EC2) in attempt to avoid some odd computing issues/errors I kept encountering on our lab computers (Apple Xserve 3,1)....
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Sam White

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Previously, I ran a PyRad analysis on just a subset of these samples in an attempt to have some data for a grant pre-proposal. I’ve now completed a PyRad analysis on the full set. Now, I just need to figure out what to do with the output from this……
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In their circles
153 people
Have them in circles
123 people
Patrick Schmitt's profile photo
Chrissie Pflipsen's profile photo
Joelle Blais's profile photo
Ronen Elad's profile photo
Joe Zakosek's profile photo
Carolyn Friedman's profile photo
Etilet Maipi's profile photo
Michael McConnell's profile photo
Katherine Silliman's profile photo
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I like playing video games and eating Kraft macaroni & cheese w/hotdogs.  Oh, and I also like Phish!
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