https://docs.google.com/forms/d/e/1FAIpQLSe9jZdVHqTk7W_wvbwYP9ivoKU7p_y91q_nhmdQ5qnDPZ2jow/viewform

Hi, these are some basic data visualization from SARS-Cov2 sequences.

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https://preview.redd.it/djjnpmdlq1ia1.png?width=4151&format=png&auto=webp&s=468745eaf3f3a9ac640cdb5fb2bb6ea51deddeae

Roughly changes in the frequencies of the nucleotides inside the viral sequence appear to be correlated with the generation of new variants.

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https://preview.redd.it/o5ia3kanq1ia1.png?width=4334&format=png&auto=webp&s=16594fada460018e778768ca243f151297c3b4fb

More details at.

https://tavoglc.substack.com/p/statistical-analysis-of-biological

Is there a dataset that collects the positive daily COVID-19 cases for each city or province in China? And please abstain from commenting "it doesn't matter, you won't get the 'real' numbers from China anyway." I guarantee China's COVID-19 data is more comprehensive and accurate than from whichever country you're commenting. Of course they are posting the numbers, it's just hard to scrape all the data for every city due to different formatting. Here's an example. http://www.sz.gov.cn/en_szgov/news/notices/

Very mild case.

“More good news from South Africa! A new paper just out with data from hospitalized patients. The study compared hospitalized patients from Omicron (“wave 4”) compared to earlier waves.

Remember, this is hospitalized patients- so a group of people probably more like the hospitalized cohorts found in the USA. Not the general population of South Africans.

Highlights:

The number of patients treated in the hospitals during the same early period of each wave differed (2351 in wave 4 vs maximum 6342 in wave 3).

This implies fewer hospitalizations, as we know that Omicron is highly transmissible.

68% to 69% of patients presenting to the emergency department with a positive COVID-19 result were admitted to the hospital in the first 3 waves vs 41.3% in wave 4.

Showing that Omicron is resulting in fewer hospitalizations.

Patients hospitalized during wave 4 were younger (median age, 36 years vs maximum 59 years in wave 3; P < .001) with a higher proportion of females.

This is interesting and will need to be explored in more depth. Is this due to natural immunity of the elderly or that Omicron is a milder disease for the elderly than previous variants? Another hypothesis is that Omicron is not infecting deep lung tissue, so the elderly are having more mild disease compared to other waves. Few elderly might mean fewer overall hospitalizations but with a young median age.

Significantly fewer patients with co-morbidities were admitted in wave 4, and the proportion presenting with an acute respiratory condition was lower (31.6% in wave 4 vs maximum 91.2% in wave 3, P < .001).

Again, this is good news all around!

Of 971 patients admitted in wave 4, 24.2% were vaccinated, 66.4% were unvaccinated, and vaccination status was unknown for 9.4%.

How this relates to the population of vaccinated and unvaccinated is a little difficult, because the SA vaccine program has significantly increased the proportion vaccinated this fall.

The proportion of patients requiring oxygen therapy significantly decreased ( 17.6% in wave 4 vs 74% in wave 3, P < .001), as did the percentage receiving mechanical ventilation.

Again, very good news!

Admission to intensive care was 18.5% in wave 4 vs 29.9% in wave 3 (P < .001).

More mild disease, even in the severe cases!

The median length of stay (between 7 and 8 days in previous waves) decreased to 3 days in wave 4.

Another super indicator of mild disease!

The death rate was between 19.7% in wave 1 and 29.1% in wave 3 and decreased to 2.7% in wave 4.

This also, should make us all very happy!

Again – remember this data is for HOSPITALIZED PATIENTS ONLY!

So, don’t let the fear-porn get to you – Omicron is coming to a town, village, city, restaurant, or grocery store near you. But for the vast majority of us, we will be fine. We have tools to fight this more mild variant, and there are life-saving treatments. Just work to stay or get as healthy as you can, eat your vitamins, eat real food and go get some exercise!”

I ask this because I understand how percentages, per capita, or per 100K can be used to create a skewed bias.

I also understand that most COVID-19 deaths aren’t caused by COVID directly, but rather underlying health issue with a positive covid status.

If someone could provide me with data, or source of data I would like to see the truth behind these COVID-19 numbers per state in the United States.

As of yesterday, the Variant Tracking dashboard https://outbreak.info/situation-reports now has visualizations for prevalence of grouped sublineages (e.g. all Delta variant sublineages), breakdowns of the number of sequences per sublineage, and comparisons of sublineages by location.