My beloved and I, at my instigation, took a little vacation on Friday. I wanted to celebrate finishing our taxes, the weather had been beautiful and sunny (although still slightly cool, c’mon, it’s British Columbia in March), and we hadn’t been out at all together in a very long time.
So we rented a carshare, ostensibly to cruise around and look at cherry blossoms.
But of course there was scope creep. Oh hey, if we look at cherry blossoms out at UBC, then we should get takeout from my fave campus restaurant and eat at the little park next door. And of course get ice cream from my fave ice cream shop. Oh, and if we have a car, we should go visit J&A (distanced, in their back yard), who my beloved hasn’t seen in person for a year. And because they can’t invite us in, let’s get takeout on our way home! Oh, except beloved as a doctor’s appointment at 3pm, so we’ll need to add that in. Oh, and as long as we have a car, we should pick up bulk kidney beans and yellow raisins at the Punjab Food Centre.
We are still in a pandemic, so there were a few things that we knew would be different, even in the planning stage. In Before Times, maybe we would have stayed at J&A’s for dinner. In Before Times, we would have eaten at the restaurant. I also carefully checked fave restaurant’s web site to make sure they were still open.
I gave a passing thought to toilets. We should probably pee at fave restaurant at lunch. I considered whether that was safe, and decided it was. Their washroom was relatively large and lightly used even when in Before Times.
Well. When we got to fave restaurant, there was a sign which said that it had closed on 7 Dec. Grrrr, thanks for keeping your website updated, not.
And I needed to pee!
The UBC hospital is very close, so we headed over there. I felt a little bad about sneaking in, but I had been a patient there before, and I really did need to go. But a sign which said, “NON-ESSENTIAL VISITS PROHIBITED.” While finding a toilet was essential for me right then, I was pretty sure they wouldn’t find it essential. I could not enter in good conscience, even though I was wearing a good mask.
So instead, we went to the UBC Health Clinic, where we are both current patients. They have big washrooms with low usage, so I felt pretty sure it was safe. Success!
That gave us enough breathing room to find a fast food joint near the ice cream shop. We ate a leisurely lunch outside, had ice cream outside, and then… I needed to pee again. After a little bit of discussion, we decided to swing past home and pee there. (It also let my beloved pick up his wallet, which he had forgotten at home because he doesn’t go out that much because pandemic.)
I thought about staying home and having him swing around afterwards and pick me up, but then decided that if I went with him and waited in the car (because pandemic), then we could head straight over to J&A’s.
Did I mention that my beloved got the food at the restaurant? And so when I asked for a cola, dutifully got me a cola? Which came in a 591ml bottle instead of the 222ml mini-cans which I usually drink?
Yep, after Jim got done with his doctor’s appointment, I had to pee again. And since J&A couldn’t let us in their house…. yep, we swung past home again.
After we left J&A, I was able to hold it until we got home, but I was definitely paying attention to my bladder.
“You have to plan potty breaks really carefully” is not the pandemic advice I ever expected during Before Times.
There is a lot of nervousness right now about new strains of the SARS-CoV-2 virus. There is now very good evidence that the B.1.1.7 (“UK”) strain is more transmissible than the original strain (which I will call the “Wuhan” strain because I haven’t seen anyone give it a name). There are also strains out of South Africa and Brazil which have similar mutations and are similarly worrying.
So I have been wondering how fast Moderna and Pfizer/BioNTech could tweak their strains to produce vaccines targeting the UK strain instead of the Wuhan strain. That has not been entirely straightforward to figure out, but I think I have finally pieced it together from reading, mostly from this and this.
The things that need to be done include:
Get the DNA sequence of the new strain’s spike protein. That’s something which comes from outside the company. (Zero additional time.)
Modify the sequence slightly in completely predictable ways: add a start block on, add an end block, convert all the thymine with 1-methyl-3’-pseudouridylyl, translate some bases into equivalent sequences to get a higher proportion of cytosine and guanine, etc. (See Reverse Engineering the source code of the BioNTech/Pfizer SARS-CoV-2 Vaccine for more on these algorithmic modifications.) (Educated guess: probably fifteen minutes of additional time, not even worth counting.)
Modify the sequence slightly to improve manufacturability. This will be a proprietary step that the company will do. Given how small the physical changes are between the Wuhan strain and the UK strain, I suspect that this step will not take long, and possibly could be skipped. (Guess: 0-1 days.)
Convert the text sequence into physical DNA, the “template DNA”. This is a completely straightforward, common process, but I don’t know how long it takes to get the amount of DNA needed. (Guess: 1-4 days)
Verify that you got the right DNA, I assume using a PCR test. (6 hours, 0.25 days)
After this point, all the rest of the production steps are exactly the same as are already being done for the Wuhan strain. If I were Pfizer or Moderna, I would already have done the previous steps for all of the scary variant strains and have a bunch of DNA on ice, ready to ship out if the green light was given. So it might in fact be zero additional days. (2-6 weeks, 6 weeks)
Addendum 2021-03-02: This article says that finish & fill — testing, getting the serum into the bottles, and labelling — take five weeks.
I have not heard of any official floating the idea of modifying the vaccine, probably because it looks like the Wuhan vaccine will be good enough against the UK strain. (Addendum: the B.1.351 is a different matter.) However, if there started to be rumbling about how the vaccine should be changed, if I were Pfizer or Moderna, I would actually go through all the steps to make enough doses of the UK vaccine for testing if need be.
It might be the first time we do it, we’ll check an immunogenicity study. But it’s not going to have to be another 30,000 patient clinical trial. Those immunogenicity studies are usually 400 patients, just to make sure that we have the right check of what’s coming out. And even that may not be necessary after we check at the first one or two times. So I think we’ll have a way of evolving here with these.
If I understand correctly, immunogenicity studies are tests of the blood which check to make sure that the vaccine causes the desired immune response.
This would mean that the the company would vaccinate volunteers — apparently about 400 — give them enough time for their immune system to react
Recruit test participants. Hopefully they would have volunteers ready to go. (Zero additional days.)
Wait for the test participants’ immune systems to react to the vaccines. (14 days.)
At this point, the test participants’ blood could be tested to see if it mounts the desired immune response. One might think they could stop there, but regulatory agencies probably would want to check after the second dose. Moderna ran their first trials with a 21 day delay; Pfizer did a 28 day delay. (7 or 14 more days) Addendum 2021-03-04: These new vaccines are being positioned as boosters, which means there would not be a second dose.
Give all the volunteers their second dose. (1 day)
Wait for the volunteers’ immune systems to react to the vaccines. (14 days.)
Take blood samples from the test participants. (1 day)
Test blood to see if it mounts the desired immune response. (Guess: 2 days)
Write up report. I think this wouldn’t take long because they could copy and paste a lot from the Wuhan vaccine’s report. (Guess: 2-7 days.)
At this point, it would go to the regulatory bodies.
Add that all up, and it comes out to about 7-8 weeks from finishing the vaccine production to the data delivered to regulators, 3-4 weeks if they only require one dose.
The regulators would need to evaluate the data. Different regulators take different lengths of times, but the Pfizer vaccine took about three weeks from the application to approval by the US Food and Drug administration, and about the same amount of time for Health Canada to approve it. A new strain would have far less data to pore through, so I would guess it would be only a week or so. (Guess: 1-3 weeks)Addendum 2021-03-04: I’m now thinking 1 week is probably too optimistic. Say 1-3 weeks.
In summary, my best guess is 4-6 weeks to manufacture the new vaccine, 7-8 weeks to do clinical trials, and 1-3 weeks for approval, or a total of 12-18 weeks.
Addendum 2021-02-06: According to a Washington Post article on 2021-01-25, Moderna has started working on a vaccine for the P.1 variant.
The scientific and pharmaceutical race to keep coronavirus vaccines ahead of new virus variants escalated Monday, even as a highly transmissible variant first detected in people who had recently traveled to Brazil was discovered in Minnesota.
Moderna, the maker of one of the two authorized coronavirus vaccines in the United States, announced it would develop and test a new vaccine tailored to block a similar mutation-riddled virus variant in case an updated shot becomes necessary.
Addendum 2021-02-07: I forgot that the delay between the first and second dose is not 14 days, it’s 21 (for Moderna) and 28 (for Pfizer). I have adjusted accordingly.
A prime inventor of the technology behind mRNA vaccines, Drew Weissman, of the University of Pennsylvania, said he has been told by the leader of BioNTech that it could take as little as six weeks to formulate a new mRNA payload and manufacture it to target a variant. Pfizer chief executive Albert Bourla told investors earlier this month that he anticipates that a variant-specific vaccine could be approved in 100 days, including clinical testing and regulatory reviews.
Addendum 2021-02-25 from an article dated 2021-02-22: the US FDA has released guidelines on what testing vaccines against variant strains will need to do. They need to vaccinate volunteers with the variant vaccine, and look at the blood to see how big of a response to the virus variants the volunteers’ blood makes. If the response is comparable to the one from the Classic vaccines, it’s a go.Addendum 2021-03-04: There’s a consortium of European non-EU countries which says the same basic thing about approving vaccines against new strains.
After a brief introduction to cartograms, it shows rolling seven-day average COVID-19 case counts by county, animated by day.
My husband commented that it was easy to see how the suffering moved around. Big dark areas show where there was a lot of suffering. Small dark areas show where there was intense, concentrated suffering.
As I mentioned in my last post, the suffering moved around quite a bit, and that is really easy to see in the video.
