Daily COVID-19 Briefing: Tuesday

Top news, reports and insights for today:

  1. Daily headline summaries for Tuesday:
  • Maryland reports largest rise yet in COVID-19 cases 4 days after reopening. The most recent test positivity rate is 25% suggesting testing is still selective; cases no doubt under-estimated (NPR)
  • Tracking SARS-CoV-2 using genetic analysis: The virus jumped from animals to humans, then spread through human-to-human contact; circulation started in China as early as October 9, 2019; the virus mutated minimally before March 1; multiple “seeding” events occurred in the U.S. but most infections in Washington State likely came from one individual (Scientific American)
  • Wildcat strikes, walkouts and protests erupt across U.S. “essential” industries over low pay, lack of safety and protections for workers (The Guardian)
Image captured from the Guardian website: https://www.theguardian.com/world/2020/may/19/strikes-erupt-us-essential-workers-demand-better-protection-amid-pandemic
  1. U.S. COVID-19 cases remain flat, deaths dip
     On Monday, the U.S. reported 21,287 new cases, a rise of 1.4%. The 7-day moving average has been declining generally, but flattening in recent days. Last week, 159,270 cases were reported nationwide, a 12% rise. The 1-week growth factor was <1 (0.96) as there were 166,000 new cases the week before. The U.S. is poised to pass 1.5 million cases tomorrow, and continues to have the most cases of any nation, with more than 1 million more cases than Russia (now at #2) and Spain (at #3). States with more than 25% case growth in the last week include Arizona (+25%), Minnesota (+39%), North Dakota (+27%), North Carolina (26%) and Maine (+29%).
     On Monday, there were 792 COVID-19 deaths reported, a rise of less than 1% and the second day of fewer than 800 reported fatalities. Last week, 9,484 Americans died of COVID-19, a rise of 13%, compared to 12,125 the week before (growth factor=0.78). The declining trend in deaths is a positive development, remembering that we would anticipate a rebound in reported deaths tomorrow given the weekend reporting lag. States reporting 25% or more increase in total deaths include Arizona (+28%), New Mexico (30%), Iowa (+31%), Nebraska (+25%), South Dakota (+29%), Delaware (+32%), and New Hampshire (+29%).
    What this means? Because deaths lag behind cases, and cases lag behind infections, it is plausible that the dip in deaths will be temporary. In my opinion, we are now waiting for signs of the conveyor-belt of infections to become visible over the next few weeks as the impact of reopening moves like a ‘pig in a python’.
  1. From anosmia to ‘COVID toes’: What to do with the strange mix of COVID-19 symptoms
     Yesterday, there was a nice article in Scientific American summarizing the challenges we face in understanding the often baffling array of symptoms that have popped up during this pandemic. I have been yelling at anyone who would listen since the beginning about the importance of getting the case definition right. Until we have tens of millions more tests, we should be using clinical check-lists to screen everyone. That requires doing a lot of important work to determine how symptoms cluster together and how they map to test results. That itself is a big discussion for another time. In the meantime, lets consider why this has been such a challenge for us disease detectives.
     Any attempt to characterize the symptoms and signs of disease requires balancing two key features of any case definition: sensitivity and specificity. It’s a balancing act because we have competing needs: define the disease broadly enough that it captures all true positive cases, but narrowly enough that it captures all true negative cases. The first part is intuitive (what set of symptoms, when endorsed, identifies everyone who really has COVID-19). The second part is trickier and less intuitive (which symptoms, when endorsed, avoid identifying people with a similar respiratory infection as having COVID-19 when they don’t). The former is the essence of sensitivity, the latter is specificity. The balancing act gets especially tricky when the most common symptoms (fever, cough, fatigue, headache) are also signs of other diseases (ergo low specificity). That’s why my ears always perk up when a rare and mysterious symptom comes onto the radar. Examples include anosmia (loss of sense of smell) or chilblains (sore, red, swollen toes). From a measurement point of view, these symptoms are as good as gold because while they are rare, they are they can be used to differentiate COVID-19 infection from other illnesses. Problem is that requiring rare symptoms lowers our sensitivity and we miss true positives. We know a great deal about how to handle these measurement challenges, its simply a matter of gathering the right data and doing the leg work. To my knowledge, this hasn’t been done yet and is sorely needed.
     Another challenge is that the symptom profiles are clouded by the shear scale of the pandemic. With 5 million cases of a disease nobody had heard of 6 months ago, it is hard to separate the diagnostic wheat from the chaff. When huge numbers of people get a new disease, super rare symptoms will occur and get noticed. Some of these will be noise and some will be signal. There is an art to telling the difference.
     Another challenge is that there are symptoms that occur because of the pathogen itself, and those that occur as a result of host characteristics related to individual differences in immune response. For example, some of the sickest people end up in respiratory failure due to cytokine storm, an exaggerated out-of-control response by the body to a novel viral invader. Separating indicators of differential host susceptibility and symptoms of infection is a key challenge – and its often not a clear line of separation.
     A final challenge is more sociological than scientific. During a fast moving and scary epidemic, facts and opinions go viral, become memes and persist in the collective mindset, even when they no longer serve a purpose. Both the WHO and the CDC were stuck on an initial case definition from a single brief report from China based on a just 41 very sick ICU patients (Huang, Lancet). Long after we had learned that up to 30% of COVID patients don’t present with a fever, that fatigue and malaise were more common than shortness of breath, and that gastrointestinal complaints were important additions to the mix, it took weeks or months before officials moved past the “big 3” (fever, cough and SOB).
    Bottom line: A more complete and nuanced understanding of the diverse symptom profiles of this novel disease are emerging. It’s a fundamental task of the disease detective to gather the right clues and examine them through the right lens. That work still lies ahead. How can I help?


Top pick of the day

This Is How Disease Outbreaks Like The Coronavirus Pandemic Occur – And How They Can Be Stopped

Article by Mark Kortpeter, biodefense and infectious disease and public health physician, scientist and author, Forbes, posted May 17, 2020 at 2:00 PM ET

A thought provoking big-picture overview of the way epidemiologists think about epidemics. Covers how disease spreads, modes of transmission, how outbreaks are contained, what the heck is a ‘fomite’, and what is similar and different about SARS-CoV-2.

Today’s bite-sized, handpicked selection of important news, information or science for all who want to know where this epidemic is going and what we should do.

Daily COVID-19 Briefing: 5/6/20

Top news, reports and insights for today:

  1. COVID-19 headline summaries for Wednesday:
  • Scientists at Mount Sinai in New York show that COVID-19 patients treated with blood thinners had better survival adjusting for other factors. This was not a randomized clinical trial but strengthens the case for using established treatments to improve outcomes in very sick patients (Journal of the Am College of Cardiology)
  • 48 hours after pledging to have a vaccine by the end of the year, President Trump backpedals (Politico)
  • FDA revised its policy regarding antibody testing, now requires companies to seek Emergency Use Authorizations (EUAs) including submitting validation data (FDA website)
  • SARS-CoV-2 found to have infected at least one person in France in December, a month earlier than first official case (Intl. J Antimicrobial Agents)
  1. Anyone who thinks this is just like the flu hasn’t seen this graph!
    I continue to hear people justify their resistance to social distancing measures by comparing COVID-19 to seasonal flu. A couple of weeks ago, I posted a graph comparing the U.S. COVID-19 death toll to other major mass casualty events in history. Below is an update of that graph. A month ago (April 5) the U.S. had reported just over 9,500 deaths. As of Tuesday, 55,000 deaths were added in that month. That is nearly as many as all American deaths during the 20 years of the Vietnam war. The U.S. has now eclipsed 65,000 deaths in a period of just over two months (if Puerto Rico and Guam are included). To put this in perspective (see graph below), as of yesterday, more Americans have died of COVID-19 than died from Ebola, SARS, The Las Vegas shootings, the Gulf war (Operations Desert Shield & Desert Storm), Hurricanes Andrew and Katrina, average deaths from the flu in March and April, H1N1 Swine flu and the Korean War. Combined.
    Bottom line: This is not the usual flu.
  1. U.S. records fourth highest death toll on Tuesday
    Yesterday, 2,435 Americans were reported to have died of a confirmed COVID-19 case, the fourth highest daily total thus far, an increase of 4%. U.S. deaths rose by 24% in the last week. Yesterday, 7 states met or exceeded the highest daily death toll including Arizona (87), Utah (6), Iowa (19), Illinois (176), Mississippi (32), Maryland (74), and Pennsylvania (554). Pennsylvania had a particularly sharp increase. The PA department of public health posted this in their press release: “As a result of our continued work to reconcile data from various sources, the state is reporting an increase of 554 new deaths today bringing the statewide total to 3,012 deaths in Pennsylvania. These deaths have occurred over the past two weeks.” Several of the states that set record deaths are nevertheless moving towards reopening including Pennsylvania. The lower figure shows rate of change in deaths over the last week. Seven states saw deaths near or above 50% last week. Midwest hot spots continue in Iowa, Montana and South Dakota. To that, additional states with high growth rates emerged in the south (Arkansas, South Carolina and Virginia). According to the CDC, 35 U.S. states plus Guam are reporting widespread community transmission.
    That this means? Weekend lag in reporting continues as deaths spiked on Tuesday. Hopes that the worst is over appear to be premature as the U.S. remains just below 2,000 daily deaths. The 7-day moving average is flat over the last week. This is especially troubling given that we have not yet confronted the effect of states that reopen due to the lag between increased behavioral mixing, infections, illness and deaths. Those effects won’t be seen for another 2-3 weeks.