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SaarWillEricPeterComments/Other reference values
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Priors on natural pandemicsNote that this is the prior for a serious coronavirus pandemic -- SARS, MERS, and HKU1 do not count. OC43 in 1889 might be that last one.
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How many years per serious coronavirus pandemic206716020
Demaneuf and de Maistre suggested one natural sarbecovirus per 10 years, but didn't specify a serious one. Rootclaim said their 20 years value was generous. I just copied their 20 years value. Based on prior history, you'd think that 20 years is too low. Based on changing human activities, it's really hard to say.
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Annual odds of a coronavirus pandemic (inverse of above)0.050.0150.006250.05
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Odds that it starts in Wuhan0.0150.010.0250.03I gave a range of values from 1% to 10%. 3% here would be based on urban population of China, and excluding northern China.
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Odds that a Wuhan pandemic starts at Huanan market0.150.40.20.40.4 comes from 7 out of 17 Wuhan shops selling wildlife were at Huanan market, according to Xiao Xiao 2021
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Subtotal (Annual odds a coronavirus pandemic starts at Huanan)
0.00011250.000060.000031250.0006
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Inverse (years per Coronavirus pandemic at Huanan)8888.88888916666.66667320001666.666667
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Priors on lab leak at WIV
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Annual risk of a lab accident at WIV0.150.050.020.02
.002 historically for BSL-3 labs in USA. Demaneuf and de Maistre said .02 was the "worst case scenario". Ron Fouchier thinks it's 1 in 10 million for his lab.
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The WIV did DEFUSE0.40.50.0590.4Eric summarized his odds a little bit differently here, I arbitrarily refactored them, by guessing here
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WIV had a secret backbone close to SARS20.50.010.50.001Eric said later that he thinks this is lower, it just didn't seem necessary to estimate it to get his answer.
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WIV found that virus interesting enough to work with1110.1
Interviews with many scientists say that they're surprised anyone would work on a virus only 80% similar to SARS, and would focus on closer viruses.
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The WIV used that novel backbone for experiments110.20.01This is also refactored for Eric, same as above
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WIV research succeeds110.51
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WIV made > 10 functional viruses10.111I think this is sort of the same as "used the novel backbone for experiments", Will just phrased it differently.
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First case shows up in Wuhan vs elsewhere10.511Will considered the case where a leak from WIV could start in another city, i.e. a travelling scientist
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Injected worker causes a pandemic0.4110.33This is probably more like 0.2 for single leak of a virus with R0 = 2.5, k = 0.1
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Subtotal (Annual odds WIV leaks a novel sarbecovirus)0.0120.00001250.0000590.00000000264
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Inverse (years per lab leak of this novel sarbecovirus from WIV)83.333333338000016949.15254378787878.8
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Priors: ratio between lab/natural pandemic for Wuhan novel sarbecovirus
106.66666670.20833333331.8880.0000044Note that Eric said he thought his ratio was probably grossly too high, in favor of the lab, at this point, but went ahead with it.
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Market evidence
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First known cases are at Huanan market0.10.00040.00010.0001
Rootclaim gave a range of values from 0.4% to 4% in debate 1, and then changed it to 10% in debate 3 based on his higher exponential growth theory
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No wild animal vendors with documented infections6.6111
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No intermediate animal host found4111
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Subtotal:2.640.00040.00010.0001
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Distribution of positive environmental samples and cases within market
2.510.0660.03Eric said market samples favor zoonosis by a factor of 15 but also did not include those is his main bayesian calculation.
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Lineage A/lineage B evidence
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All sequenced cases at the market are lineage B5111
Maybe I should count this against zoonosis, but I'm not sure. The one lineage A sample at the market does have a human case associated with that shop. Also, in Saar's concept of steelmanning, this is really easy to steelman -- the first lineage A patient could have been a customer, not a vendor.
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First 3 lineage A samples are either at or near wet market1110.02
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Two basal polytomies1110.25
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Genetic clock says that B came before A1110.1
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Subtotal for Lineage A/Lineage B5110.0005
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Wuhan is the only city with a recorded spillover11011Honestly, I agree with Will here that this leans weakly against zoonosis, but I'm not sure what the ratio should be. 10 might be too high.
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Covid started during same month as SARS (seasonality)1110.25
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Furin cleavage site
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Virus has a Furin Cleavage Site2115
It's important to avoid double counting. Since the judges conditioned the natural priors on a serious coronavirus pandemic, this is probably included, because it's a feature that makes the pandemic serious. Since my prior was 1 in 20 years, and there's was closer to 1 in 100 years, and serious coronavirus pandemics might be less common, I'm going to add a 5 here.
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Furin cleavage site from 12 nucleotide insertion5025201
I think I gave a range during the debate, and said that my argument would still win with Saar's 100X ratio here. Since the debate ended, I realized that no lab in history has added FCS via insertion, they always did so by mutation. On the other hand, nature does 12 NT insertions with some regularity. So I'm now closer to 1 on this value than I was before, and this could even lean natural.
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PRRAR furin cleavage site0.550.110.005I said 1 in 10 for alanine and 1 in 20 for proline
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Furin cleavage site inserted via frameshift0.660.1710.17
this is based on the logic that the original virus could have had different codons for the leading serine. With 6 codon choices, 1 would be in frame.
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Furin cleavage site at S1/S2, not S2'1110.5It seems like the DEFUSE grant was talking about the s2' site, some virologists think that's very important, I wouldn't put too much weight on it.
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double CGG101012
I gave a range between maybe 0.5 and 5.0 for this, not obvious to me how important it is, but it's obviously not the 1000X for lab that some people claim.
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Subtotal for furin cleavage site3634.25200.00425
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ACE2 binding5121
I'm not sure what Rootclaim even meant here. Is this just whether covid binds well to human ACE2? That's just a precondition for a pandemic, any sarbecovirus that infects people would bind to ACE2. Eric interpreted this to mean that covid binds best to human ACE2, of all species. But I don't think that's even true -- various papers disagree and Rootclaim cherry picked the one paper that argued that. Also, even if that were true, it would be in conflict with Rootclaim's 50% prior that any old virus could be used to start the pandemic, because a starting virus with human optimal ACE2 binding would surely be a much rarer thing than that.
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Altered n-glycans1.5111
I think this could honestly lean natural, perhaps even strongly so -- it's probably a sign that the virus jumped species, and it's unlikely that a lab would do an experiment with a novel backbone, and then a furin cleavage site, and then also an N-glycan change, all without any prior publications or prior leaks. But the arguments here are complicated and the odds Rootclaim used were low, so I mostly just ignored this.
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Other arguments against lab leak
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WIV didn’t publish a backbone virus0.4111This was already included in my no secret virus. This might also already be included for Rootclaim, on line 13. I can't tell
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WIV didn’t publish any intermediate experiments1110.1
This was separate from no secret virus and "coverup would have to succeed". Realistically, I might have gone overboard with counting secrecy in many different ways.
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They used live virus not pseudovirus1110.5I originally said 1 in 10, before week 2, but later downgraded that to 1 in 2 based on ambiguity of the DEFUSE grant
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Hard to culture covid without mutations arising1110.1
I did make a mistake here, with regards to the humanized mice, those would not cause the mutation I said. So maybe my value should be different? I do think we probably still need some factor here, as the virus could not be in culture for long.
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Other arguments for a lab leak
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No contact tracing was done or published2111I think they did antibody testing at the market and didn't share it. Saar thinks they started contact tracing and discovered a lab leak and hid it.
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The WIV "tried to hide the Furin Cleavage Site" for RATG132111
Even Yuri doesn't buy this argument anymore. And if they really made SARS2 with an FCS insertion, I think they wouldn't disclose RATG13 at all, it would make the lab's mistakes too obvious, so this probably should lean natural.
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The WIV didn't share their entire database2111
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Coverup of lab leak would have to succeed0.3510.10.1
It is proven that China hid data about the market (like the raccoon dog DNA), and I theorize that they still have more hidden/unpublished data. So perhaps I should not count secrecy so highly. On the other hand, there really hasn't been anything to turn up for lab leak. No e-mails. No trustable evidence of sick employees. No scientists outside of China know about secret work at the Wuhan lab. And there's been lots and lots of searching.
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Final ratio (higher number favors lab leak)107331840.0035416666670.00075520
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Inverse ratio (higher number favors zoonosis)0.00000009316899813282.35294121324.1525422.85205E+20
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