Sunday, June 05, 2022

Monday, May 16, 2022

Videos about using the UCSC Genome Browser for analysis of SarsCOV2

 These look pretty useful and thought I would post here. Text is from the UCSC Youtube channel

This 5-part video series is for virologists and public health researchers interested in leveraging the UCSC Genome Browser and web interface to UShER (Ultrafast Sample placement on Existing tRees). These tools are a 'one-stop shop' to understand SARS-CoV-2 through genome annotations as well as track variants by placing your samples in a phylogenetic tree with millions of other SARS-CoV-2 sequences. Use the SARS-CoV-2 Genome Browser: Visit our SARS-CoV-2 Genome Browser and UShER quick start page with videos, scripts and more: COVID-19 Research at UCSC: 'The UCSC SARS-CoV-2 Genome Browser' publication: 'Ultrafast Sample placement on Existing tRees (UShER) enables real-time phylogenetics for the SARS-CoV-2 pandemic' publication: UShER documentation, installation, source code:: COVID-19 Genomic Epidemiology Toolkit module "Realtime Phylogenetics with UShER: Learn more about the UCSC Genome Browser: Learn more about the UCSC Genomics Institute:

Saturday, April 23, 2022

Endosymbiosis Animations for "Biodiversity and the Tree of Life"

So I am in the midst of co-teachign a very large introductory biology course at UC Davis "BIS2C - Biodiversiy and the tree of Life". I cover much of microbial diversity in this class and also the large scale structure of the Tree of Life. 

As always, I spent a lot of time working on slides and such for this class and recently posted some animations based on these slides to Twitter and Facebook and thought I would share some of them here. For today, I am sharing the animations I made on Endosymbiosis. I posted a first version of this to Twitter last week. Note - I added music - Mussorgsky - Night on Bald Mountain for drama ... I also posted it to Facebook:


And boy am I glad I did. Because multiple people commented and pointed out parts that were, well, not correct. I had lecture too soon to fix them so I told my students about this and that I would update the slides. I then spent a day updating everything and made a new version which I think is much much better.


Tuesday, April 05, 2022

A good bye to my beloved Clover


Monday, March 28, 2022

The ongoing saga with the UC Health Insurance Pharmacy "Benefits" Via Navitus

Well the saga continues. Here is an update.

It all started March 7. See here for a long thread and also responses. See this thread in an easier to read format here: See this thread in an easier to read format here And then I got told Navitus was going to be instructed to cover my insulins by UCOP but the message clearly was not recieved. And finally and thankfully today I was told my insulins would be covered. I am now interested in what is happening to others out there who have been harmed by the UC / Navitus system.

Wednesday, March 23, 2022

Some links to articles about Diabetes and COVID19

Posted some links to Twitter that I am compiling here too about type 1 diabetes and COVID19 with a focus on recommendations for diabetics in current COVID situation

See also

Independent risk factors of COVID-19 pneumonia in vaccinated Mexican adults

Risk Factors for Severe COVID-19 Outcomes Among Persons Aged ≥18 Years Who Completed a Primary COVID-19 Vaccination Series — 465 Health Care Facilities, United States, December 2020–October 2021

Age, Underlying Conditions Top Factors in Breakthroughs

 A Wall Street Journal analysis found that among fully vaccinated people, the ones most likely to be hospitalized with breakthrough infections of COVID-19 are the elderly and those with specific underlying medical conditions.

“In particular, people with diabetes, chronic lung disease, kidney disease and compromised immune systems were at risk of serious outcomes from breakthrough cases,” The Journal reported.


Lots of useful responses to question "What should high risk people do in face of relaxed masking requirements"?


So I posted this to Twitter.
And got lots of useful resposnes. Rather than compile them here if interested people should browse the responses.

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