Tuesday, April 26, 2022

Coronavirus, Late April Edition, 2022

Coronavirus, Late April Edition, 2022

By the Numbers

The Numbers: 

Nationwide, the estimated number of cases has been rising slowly now, by about 1% per day. 85% of the new cases in the USA are the sub variant of the original Omicron variant.

I based new cases identified, we are hovering around 500,000 total cases currently with the virus. 11,000 are hospitalized, up from 10,150 a week ago, down from 12,800 a month ago.

Paxlovid 

This is just a summary, for more information see the article from Yale Medicine.

Paxlovid is an anti-viral therapy of 3 pills.  The clinical trial has demonstrated an 80% reduction in the risk of hospitalization and death.  

What you need to know:  Paxlovid will be available at around 20,000 pharmacies.  If you test positive for Covid, they will issue you an impromptu prescription for an immediate treatment.  So no second step going to your doctor, then a third back to the pharmacy. 

Bring a list of the medications you are currently taking.  There is a list of drugs Paxlovid interacts with that needs to be cleared first.

What is nice to know:  It is actually 2 different drugs.  One, nirmatrelvir, prevents replication of the Covid protein, the other, ritonavir,  shuts down the nirmatrelvir processing in the liver, so nirmatrelvir will have a longer time to work.

How under counted are the number of cases?

I have heard or read the the under count of actual cases range from 7% the actual number (yes 1/14th) to 30% the actual number.  A wide variation and both are far from accurate.  Most watchers are now switching from number of cases to "Trends".  Is number of cases going up or down? And estimating from there.  There are a couple of ways of estimating the under-count.  One is testing the waste water stream for markers.  Others involve polling.

The reason for the under count is simple enough. The current dominant variant is milder, and so fewer patients require hospitalization, and many just suffer through without an official test, or take a home test and not report it.  

Watchers of the pandemic are monitoring the hospitalizations from Covid.  I never tracked that, so I have no history conveniently available.   However, everywhere I look say the numbers are way down.  

Europe's numbers from "Stealth Omicron" are coming down.  The surge it caused in Europe seems to have passed by the US.  I have been hearing for about 7 weeks now that we are usually 4 weeks behind Europe.  Justifications (IE Excuses) seem to be because our unvaccinated community was ravaged by Delta/Early Omicron, that just about everyone in the US is either vaccinated or recently exposed.  But I think this applies to most of Europe as well.  Their vaccination rate was better than the US, 76% have 2 doses vice 67%, and Stealth Omicron surged there.  I think it is simply that their health systems are managing their numbers better. 

Is the total cases relevant?

Not so much any more.  I think the hospitalization rate is more important.  Society as a whole has 12 stepped it's way to acceptance.  The current version of Covid is 3 times deadlier and 6 times more infectious than the common flu.  Alpha was over 100 times deadlier and 2 times as infectious.  We as a whole now regard the deaths from here on as acceptable losses.  An impromptu poll has taken place when it was announced that the federal judge, Kathryn Kimbal Mizelle,  tossed out the mask mandate.  Her reasoning was, the CDC, whose mission is to "protect America from health, safety and security threats", over reached to protect America from a health threat.  But if you sweep the crowd videos, about 3/4 of the people were cheering, 1/4th was disgusted.

Alabama is Back!:

This is not really important except to my fellow counters.  For about 18 months, the state of Alabama stopped reporting its numbers for "Total Recovered" and "Active Cases".  They are now reporting those cases again.  1,204,517 and 73,062 out of a population of 4,903,000.  Alabama was one of the reasons why I stopped using the Active Cases number reported to the CDC and went to an algorithm to calculate the active cases rather than rely on what the states were reporting.  

Alabama was not alone among the states to do this.  They were just the most obvious, because I sort alphabetically and their numbers are at the top of the list.  Most states lost track of recovered patients.  Who goes back to the doctor to report they are well now?  For anything?  A number of states went to an algorithm like mine, others simply would do a reassessment of the total cases and overnight, those numbers would drop 50% or more.  Florida was the worse offender, and at one time Florida had 20% of all the active cases in the country, because they never updated their "Recovered" numbers.  Truly, it was Florida that forced me to deviate from reporting the CDC numbers directly.  And updated with a calculated number instead. There is nothing evil or conspiratorial about this.  It's just bureaucracy trying to keep up with reality.  

Though Florida's death counts continue to use a back dated version of the numbers, which makes the today's deaths smaller, while backdating the deaths in the past. 

For the variants, up to and including Delta, I used the formula of adding up the previous 3 weeks of cases, and then added 6% for ICU cases, and reported that as the number of "Active Cases".  For Omicron, I have adjusted the calculation to 2 weeks + 3%.    And Omicron still had over 10 million cases at one point.  Alpha peaked at 5.2 million the year before.

I was working with Delaware Health and Human Services (DHHS) last year and got a peek at what it takes to change reporting to the CDC.  The departmental politics to change anything is daunting.  We are not talking Rep. v Dem politics, just control issues of which department does what.  I was assigned a project to upgrade their Sexual Transmitted Disease program to the CDC because Delawares program was using a database called "Foxpro", which was no longer going to be supported by Microsoft.  My job was to totally replace the program.  

While I was gathering requirements, I found out the CDC built the program I was replacing, and built a replacement program, and had already established a process to upgrade, and this process had already been executed in over 25 states.  So the choice for DHHS was adopt the CDC program, which was cheaper, well vetted, will have regular updates.  Or a program that will not be as full featured, not work as well, no vetted and would not have regular updates, but would have the features they control, and not beholden to to some federal organization.  

They decided to lay me off while they discussed this.  The fact there was a discussion is disconcerting.  They had a budget for programmers, but not one for upgrades.  Bureaucracy. 

And FYI, by my calculations, Alabama should have about 2,900 active cases, not 73,000.


Thursday, April 7, 2022

Coronavirus, Early April Edition, 2022

Coronavirus, Early April Edition, 2022

By the Numbers

The Numbers: 

Nationwide, the estimated number of cases has been dropping very slowly now, by about .5%. The drop in new cases of the version Omicron being almost matched by the rise of the "Stealth Omicron" variant.

I based new cases identified, we are hovering around 370,000 total cases currently with the virus. 16,100 are hospitalized, the lowest number since 7/2020.

The Next Booster Shot:

On 3/29, the CDC announced its recommendations for the next booster shot. If you are over 50, or have immunocompromised conditions, and the last booster shot was at least 4 months ago, you are eligible for the next booster shot, either one of the mRNA's or Johnson and Johnson.

How effective is the booster shot?:

From statistics published in the Lancet Regional Health.    These percentages are taken from patients already hospitalized with Covid, and so does not take into account that you are less likely to be hospitalized with Covid if you are vaccinated.

Fully vaccinated and boosted:  Mortality rate 7.1%

Fully vaccinated, no booster:  Mortality rate 10.3%

Unvaccinated:  Mortality rate 12.8%

Are We There Yet?:

We are into the 3rd year of this pandemic, and plague fatigue is sitting end with even the most ardent followers. I wanted to close down this bi-weekly reporting last July, and then Delta hit. Based on the timeline for the Spanish Flu, we are almost there.

Timeline “Spanish” Flu
1/1918

Believed first cases of Spanish Flu in the US
3/1918
First known case of Flu in the US

First Wave: 3/1918 to 8/1918
Not a significant increase in the number of deaths. 75,000 for the season in the US as opposed to 63,000 in 1915.

Second Wave: 8/1918 to 1/1919
The deadliest wave, 330,000 deaths in the US.

Third Wave: 1/1919 – 6/1919
128,000 deaths in the US

Fourth Wave: 12/1919 – 4/1920
150,000 deaths in the US.

2 years, 3 months

Timeline Covid
12/2019 

First cases in China.
1/2020  

First case in the US
First Wave: 3/2020 to 8/2020
158,000 deaths in the US

Second Wave: 8/2020 to 2/2021
The deadliest wave, 292,000 deaths in the US

Third Wave: 7/2021 to 11/2021
“Delta” 156,000 deaths in the US

Fourth Wave: 12/2021 to present
“Omicron” 222,000 deaths in the US.
2 years 5 months

A lot of notable similarities. The waves mimicking their duration's, or just human nature for categorizing them. Second wave was the deadliest. We adapt, and third wave less deadly, we get fatigue of dealing with the pandemic and the fourth is deadlier. The fourth wave of the Spanish Flu, like Omicron, had mutated with a lower mortality rate, but more infectious.

As a historical FYI, the Spanish Flu did not originate in Spain. It may have mutated first in the US, as the first known case was an Army Cook in Kansas. Maybe he was experimenting with bat stew.

There was a war on, and the flu was affecting operations in France, so there was censorship in the press in all the warring nations. But Spain was neutral, and reported her cases freely, and so Spain got the blame for being ground zero for the plague.

More Evidence On Pandemic Fatigue:

We passed a million deaths from the plague last week, and I the only headline I saw about it was this week, and the article mentioned we were nearing a million dead.  And since we crossed before the Oscars, so it wasn't the slap event either driving it from the headlines.

How much anti-vax  propaganda was Russian generated?:

It has been well known, for over 5 years at least, that the Russians have set up organizations to create conflict within the western world using social media.  It didn't matter the topic.  If you were of one political alignment, they had bots to point flaws in the other.  Any disagreement was being magnified.  But how much was honest disagreement, and how much was Russian bots and agents, "stirring the pot"?

Since a lot of the internet traffic emanating in Russia has been cut off, we have been getting a substantial quieting of arguments.

For instance, NPR's forums and twitter accounts are now nearly devoid of anti vax come backs on articles on vaccine effectiveness.

I have noticed also a quieting on local forums along a similar vein.  Anti vax supporters are virtually gone.  

Also political attacks and snarkieness.  From both sides.

Another anecdotal story of a "bot holiday" of Russian supplied invective.  A Dr. Fisman, an ardent vaccine supporter, when he comments on Covid would get many angry replies to any tweet, including a test tweet stating simply, "Kids are Remarkable".  Now receives none since Feb 28.

But it is not entirely due to being Russian internet traffic being blocked, the Russian bot farms are also redirecting to war propaganda.  Since the invasion of Ukraine, 650,000 twitter accounts were created, spawning over 5 million pro Russian tweets.  About 7% of the totals for this time period.