News

What do we use for #opennotebookscience?

Posted in News, Outreach

What do we use for #opennotebookscience?

Here’s the link to the website where you can sign up for a free WordPress (WordPress is a type of blogging platform) notebook: http://onsnetwork.org/ On the right side of that page is a “button” that says “Start a New Notebook”. Click on that “button” and that will initiate the sign up procedure for Open Notebook Science and launch your new notebook. It may be a bit overwhelming at first, as there are loads of customization options (should you choose to go down that rabbit hole). However, you can keep things simply by leaving everything set up with...

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Hands on demo – knocking out oysters for science

Posted in News, Outreach

Hands on demo – knocking out oysters for science

Jake ran a hands-on workshop on how to sample oysters at the Ken Chew Shellfish Hatchery at the NOAA Manchester Research Station. Professor Bonnie Becker and lab from UW Tacoma were there and took this great video. Be sure to read the entire account of the event on the Becker Lab blog – Doping oysters and stealing their...

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Austral Summer Institute Course Wrap-up

Posted in News, Teaching

Austral Summer Institute Course Wrap-up

Last month I had that opportunity to visit the University of Concepción, and teach a course at the Austral Summer Institute – “Physiological response of marine organisms to environmental change from a genomic perspective”. This is a five day course with AM lectures and hands-on bioinformatics modules in the afternoon. The learning objectives of this course include 1) Understanding of fundamental physiological processes 2) Acquisition of core computing skills 3) Hands-on experience with genomic datasets via course website aka GitHub wiki Mornings were physiology lectures...

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A Gift of Preprints

Posted in News

A Gift of Preprints

Just before Christmas we released two preprints with accompanying GitHub repositories. While both are on on oysters, they are different in several ways. Different species, different servers, and different software approaches (R vs IPython). If you need some light reading over this Holiday Season be sure to have a gander at these products. We would love it if you could give us the gift of your comments on anything on the respective hosting sites. Merry Christmas! 1) Heare JE, Blake B, Davis JP, Vadopalas B, Roberts SB. (2014) Evidence of Ostrea lurida (Carpenter 1894) population structure in...

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Shotgun Proteomics reveals so much about Ocean Acidification

Posted in News

Shotgun Proteomics reveals so much about Ocean Acidification

Not only proteomics, but the integration of lipid profiles, glycogen analysis, shell strength, growth, response to heat, and response to spinning provides tons of new insights into ocean acidification impacts on shellfish. The provisional PDF of “Shotgun proteomics reveals physiological response to ocean acidification in Crassostrea gigas” is now available via BMC Genomics. Background Ocean acidification as a result of increased anthropogenic CO2 emissions is occurring in marine and estuarine environments worldwide. The coastal ocean experiences additional daily and seasonal...

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Claire Goes Live!

Posted in News

Claire Goes Live!

Claire defends her Master’s Thesis research on oyster epigenetics! DNA methylation variation in gametes and larvae of the Pacific oyster, Crassostrea gigas Date: November 19th, 2014 2pm PST IRL Location: FSH 109 – all are welcome More Info on Claire’s Research – notebook – figshare Livestream 1 Livestream...

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