Early detection and pandemic monitoring systems will warn us of new threats and track spread, but containment will be up to public health. The American Pandemic Preparedness plan tries to ensure that it’ll be up to the challenge. 1/
If a pandemic is like a forest fire, pharmaceutical treatments are the chemical fire suppressants, while public health measures the prophylactic firebreaks, controlled burns, brush-clearing, etc that keep it from spreading 2/
Unlike a forest fire, medical countermeasures take time to develop (if possible at all), so prophylaxis is doubly important. Tiny brushfires are easily controlled, massive infernos not so much. Speed is crucial. 3/
Our immediate toolkit will include travel restrictions block wind-blown sparks, contact tracing to identify exposed areas at risk of lighting up, and quarantine to preemptively isolate them with firebreaks. 4/
Behavioral and environmental changes like avoiding crowds, PPE use, handwashing, and opening windows for better ventilation are like brush removal and prophylactic retardants: they make it harder for the fire to spread. 5/
Contact tracing requires diagnostics and struggles w/ short viral generation times, though bidirectional approaches can help (as we and @AdamJKucharski's lab showed). The others always work, but require public health. 6/
medrxiv.org/content/10.110…
Nations with strong public health systems that invested in preparedness weren’t hit as hard as the US+UK. @TomBollyky & @StewartMPatrick at @CFR_org lay it out in detail. The new APP plan tries to fix it. 7/
cfr.org/report/pandemi…
III Strengthening Public Health Systems. Modernize health infrastructure at home and abroad to prevent, respond to, and contain biological threats. 8/
6. Strengthen Public Health: $6.5B. Recruit skilled folks into public health, build up lab capacity, reduce inequities, and support evidence-based public health communication. 9/
+ Sure would be great to have a not-starved American public health system
+ Teams of competent folk to head to crisis areas and help direct the response (quarantines?)
+ Digital infrastructure to share data so we’re not using fax machines 10/
+ Focus on underserved areas, else they’ll be hit hard and spread it elsewhere
+ Evidence-based communication of why we need early travel restrictions, quarantine/isolation, PPE 11/
- Do we need “lab capacity” if we have early warning + abundant diagnostics?
(the best diagnostics are at-home and verifiable electronically)
- Public health labs are not necessarily the ones with the best sequencing expertise 12/
Can’t argue with strengthening the U.S. public health system, but what will public health do if we have abundant at-home diagnostics and large sequencing cores are already running tons of clinical samples? 13/
I would hope some of these resources go to preparing for immediate travel restrictions, contracting with hotels to serve as immediate-conversion isolation facilities, running city-wide preparedness drills, etc. 14/
7. Global Health Security: $2.8B. Work with other nations to beef up their response systems and distribution networks, and support a metrics-driven fund to improve capacities for pandemic containment. 15/
+ Distribution of vaccines/therapeutics in less fortunate nations is the humanitarian thing to do
+ A metrics-based global preparedness fund might help a great deal if done well 16/
- Distributing vaccines/therapeutics abroad doesn’t prevent pandemics
- Funding int’l early detection, travel restrictions, PPE, diagnostics would be better
- How do you measure the capacity to stop a pandemic early? 17/
Sending vaccines/therapeutics abroad would save many lives, but investing more in early detection systems and rapid diagnostic distribution abroad would save even more... and might block a pandemic from reaching the U.S. 18/
That’s it for public health in the APP plan. This is the area in which I have the least expertise, which is why I’ve been fairly quiet during the current pandemic. Comments/corrections are always welcome, but especially here. 19/
Tomorrow will cover PPEs/environment/stockpiles, then biosafety/biosecurity/catastrophic biorisks, and finally regulatory reform and coordination. Again, our window of opportunity is now: ask Congress to fund pandemic preparedness. 20/20
Now available: how better protective equipment and engineering buildings for ventilation and antimicrobial lighting could reliably block the spread of any future pandemic virus… and what the White House plan would support.
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More from @kesvelt

16 Sep
Let’s not fool ourselves. Containing an epidemic before it becomes a pandemic is difficult.

But CDC and FDA failed us. Their incentives aren’t suited to emergencies; politics made it worse. Lots of people died. The White House plan includes reforms. 1/20
@kmvnarayan14, Curran, Foege, and many others have suggested solutions, including a politics-resistant Federal Reserve model for pandemic preparedness and an independent advisory board to call out failures in real-time. 2/
jamanetwork.com/journals/jama/…
I’d go further: in a pandemic emergency, new leaders incentivized to act fast and at scale should take over. You don’t run clinical trials in a 30% lethality pandemic; you get shots into arms as they’re developed and track what happens. 3/
Read 19 tweets
15 Sep
The American Preparedness Plan includes one section and $2.0B on preventing accidental and deliberate pandemics. That’s… not much given the $$$trillion cost of (comparatively mild) SARS-CoV-2 and the $714 billion Pentagon budget. 1/20
First, the elephant in the room: there currently isn’t enough evidence to determine the origin of SARS-CoV-2. It’s widely acknowledged that the pandemic might have arisen from a natural spillover, a virus hunter getting infected, or a lab escape. 2/
If we agree COVID-19 arose from either spillover or lab escape, then lab-caused pandemics must be 1) plausible, and 2) able to kill more Americans than died in combat in all wars combined. Perhaps we should take this seriously. 3/
en.wikipedia.org/wiki/United_St…
Read 22 tweets
14 Sep
Interested in preventing future pandemics? SecureDNA, an int’l academic/commercial project, seeks a development manager (+Rust & Python coders soon) to prevent the unauthorized synthesis of pandemic viruses & bioweapons. 1/7
securedna.org/jobs
Today, it’s all too easy to make nasty things from synthetic DNA, as only members of the International Gene Synthesis consortium (~80% of all DNA) voluntarily check orders for hazards. It’s expensive and requires human experts. 2/7
genesynthesisconsortium.org
If someone were to disclose how to make a new pandemic virus, anyone with the relevant lab skills could follow reverse genetics protocols, order it from synthetic DNA, and assemble it. That’s far too many people. 3/7
Read 7 tweets
14 Sep
We need early warning to detect epidemics before they grow into pandemics, public health to lead the response, and protective equipment to reduce baseline transmission. For this last, the American Pandemic Preparedness plan includes $5.2B. 1/18
IV Building Core Capabilities

8. Personal Protective Equipment: $3.1B. Develop better protective gear for the next pandemic and update buildings to block transmission. 2/
+ N95s are imperfect, uncomfortable, and ugly: we need reliable, comfortable, and fashionable
+ Easy to manufacture is key to making enough for everyone
+ Respiratory is the big one, but worth blocking surface transmission too 3/
Read 19 tweets
6 Aug
I'm deeply worried about future pandemics & nastier agents. Nature doesn’t try to kill us; humans will. This e-print details a universal early-warning system: a “Nucleic Acid Observatory” (#NAO).
arxiv.org/abs/2108.0267
1/20
All catastrophic bio-threats grow exponentially
All bio is made of nucleic acids
To detect all threats, deep sequence wastewater + rivers & look for exponentially growing fragments (k-mers)
arxiv.org/abs/2108.02678
#NAO
2/20
Why a Nucleic Acid Observatory? @EricLander46: “to keep future viruses from becoming pandemics… (we need) early-warning systems to spot new biological threats anywhere in the world soon after they emerge” washingtonpost.com/opinions/2021/…
3/20
Read 21 tweets
11 May 20
Can tracing alone control COVID?

Our model: it's possible if we >double efficacy by changing how we trace & use digital apps.

Thanks to @willbradbio, @EthanAlley, @jhhhuggins, & epidemiologist @alun_l !

doi.org/10.1101/2020.0…

1/n
Tl;dr: We need bidirectional tracing to find infectors and undiagnosed carriers, and almost everyone’s smartphones should “chirp”. Combined = we win… in the optimistic scenario. Else add masks or distancing.

2/n
Right now, we “forward-trace” to find and isolate people who were exposed so they don’t infect anyone else.
Problem: many cases are undiagnosed, especially if asymptomatic, so we miss branches of the viral family tree.

3/n
Read 21 tweets

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