libera/##covid-19/ Friday, 2021-02-26

BrainstormNew from r/WorldNews: worldnews: UK variant now accounts for 'about half' of France's Covid-19 cases, PM says → https://is.gd/e70U8n00:00
LjL%cases France00:07
BrainstormLjL: In France, there have been 3.7 million confirmed cases (5.5% of the population) and 85546 deaths (2.3% of cases) as of 2 hours ago. 51.9 million tests were performed (7.1% positive). See https://offloop.net/covid19/?default=France for time series data.00:07
BrainstormNew from r/WorldNews: worldnews: Israel freezes plan to send vaccines to foreign allies → https://is.gd/kIkBm000:12
BrainstormNew from Ars Technica: Science: CDC unveils site to help you find COVID-19 vaccine—but only in 4 states → https://is.gd/QQzuDa00:25
BrainstormNew from The Lancet (Online): [Correspondence] Antibody response to first BNT162b2 dose in previously SARS-CoV-2-infected individuals: Rapid vaccine-induced population immunity is a key global strategy to control COVID-19. Vaccination programmes must maximise early impact, particularly with accelerated spread of new variants.1 Most vaccine platforms [... want %more?] → https://is.gd/CuqNJ200:37
BrainstormUpdates for Canada: +3150 cases (now 859221), +56 deaths (now 21851) since 23 hours ago00:46
BrainstormNew from The Lancet (Online): [Correspondence] Effect of previous SARS-CoV-2 infection on humoral and T-cell responses to single-dose BNT162b2 vaccine: The rapid implementation of SARS-CoV-2 vaccination is now a global health-care priority. Successful phase 3 trial outcomes have been reported for numerous vaccines that induce robust humoral and [... want %more?] → https://is.gd/sHMZeC00:50
BrainstormNew from Shane Crotty: @profshanecrotty: Nice work. Consistent with all the other pre-prints observing strong vaccine responses with 1-dose in people with previous COVID. → https://is.gd/cHxxxl01:02
BrainstormNew from Shane Crotty: @profshanecrotty: R to @profshanecrotty: Adding to this: Of the manuscripts/papers on this COVID vaccine topic, this is the first to also show a very nice boost to the T cell response. That's a helpful reference point. → https://is.gd/cnOGok01:15
BrainstormNew from Shane Crotty: @profshanecrotty: R to @profshanecrotty: That is consistent with excellent work in this complimentary paper, which saw a bimodal distribution in early SHM in non-RBD Spike-specific B cells but not RBD-specific, indicative of memory B cells to previous betacoronavirus infections.https://doi.org/10.1016/j.cell.2021.01.050https://is.gd/XmwaYR01:40
-RSSBot[LjLmatrix- Recent Commits to links:master: Add press releases by Pfizer, BioNTech, CureVac, GSK about developmen… ( https://github.com/ljl-covid/links/commit/e351074655c95852b0288469a055b9c972d955c6 )01:51
BrainstormNew from https://covid19.specops.network : ljl-covid: Add press releases by Pfizer, BioNTech, CureVac, GSK about developmen… → https://is.gd/AjlucI01:52
BrainstormUpdates for Netherlands: +3466 cases (now 1.1 million), +40 deaths (now 15476) since 22 hours ago — United Kingdom: +7488 cases (now 4.2 million) since 22 hours ago01:54
BrainstormNew from Shane Crotty: @profshanecrotty: R to @profshanecrotty: This excellent work from the @NussenzweigL found evidence of replicating virus ~90 days out in the gut of ~50% of recovered COVID-19 subjects. So, it is POSSIBLE that there are tissue reservoirs of virus (or viral debris) in some people for substantially longer than 90 days. → https://is.gd/nezS5v02:17
LjL"well that's interesting"02:23
LjLsomeone i know (me) used to keep fretting about the virus staying around in the body indefinitely, but the retort was that's pretty much impossible because coronaviruses are neither retroviruses nor similar to herpesviruses02:24
BrainstormNew from Virology.ws: Understanding virus isolates, variants, and strains: Many virology terms are being used these days by people who do not understand their meaning. Included are journalists, medical doctors, scientists, lawyers, and people from all walks of life. In normal times this word mis-usage would be so rare that it would not matter. However, [... want %more?] → https://is.gd/qGJpC803:30
BrainstormUpdates for France: +20584 cases (now 3.7 million) since 20 hours ago — Papua New Guinea: +89 cases (now 1228) since a day ago — United Kingdom: +7497 cases (now 4.2 million), +243 deaths (now 122106) since 20 hours ago — Netherlands: +3615 cases (now 1.1 million), +32 deaths (now 15484) since 20 hours ago04:11
BrainstormUpdates for Antigua and Barb.: +55 cases (now 701) since a day ago — New Zealand: +3 cases (now 2371) since 21 hours ago04:36
BrainstormNew from The Indian Express: World: Pandemic likely made 2020 ‘another devastating year’ for world’s forests → https://is.gd/2Hydm204:57
CoronaBot/r/coronavirus: We Need to Prepare for the Possibility That Something Good Might Happen (10020 votes) | https://www.esquire.com/news-politics/a35614976/covid-19-vaccines-good-news-variants/ | https://redd.it/ls57g104:57
BrainstormNew from r/WorldNews: worldnews: The Pandemic Has Been a Windfall for Billionaires → https://is.gd/Iprblc05:47
BrainstormNew from EurekAlert!: Vitamin B6 may help keep COVID-19's cytokine storms at bay: Vitamin B6 may help calm cytokine storms and unclog blood clots linked to COVID-19's lethality. But research on it is lacking. A Hiroshima University professor calls on fellow scientists to study its potential role. → https://is.gd/auW1Gi06:25
CoronaBot/r/coronavirus: Johnson & Johnson one-shot vaccine appears to fare better against worrisome COVID-19 variants than first reported (10055 votes) | https://www.bostonglobe.com/2021/02/24/nation/jj-one-shot-vaccine-appears-fare-better-against-worrisome-covid-19-strains-than-first-reported/ | https://redd.it/lsjfaz06:34
BrainstormNew preprint: Practical strategies for SARS-CoV-2 RT-PCR testing in resource-constrained settings by Meredith Smith Muller et al, made available as preprint on 2021-02-25 at https://medrxiv.org/cgi/content/short/2021.02.18.21251999 [... want %more?]06:58
BrainstormUpdates for Belgium: +3076 cases (now 763885), +18 deaths (now 22006) since 23 hours ago06:58
BrainstormNew from Reddit (test): CoronaVirus_2019_nCoV: The Queen: people who refuse vaccine should think of others, rather than themselves → https://is.gd/RfrBah07:01
BrainstormNew from The Indian Express: World: US Surgeon General nominee Vivek Murthy says his first and foremost priority is to turn coronavirus pandemic around → https://is.gd/dFHOmX07:26
BrainstormUpdates for Zakarpattia Oblast, Ukraine: +654 cases (now 38694), +13 deaths (now 869) since a day ago — Vinnytsia Oblast, Ukraine: +639 cases (now 34622), +5 deaths (now 638) since a day ago — Chernivtsi Oblast, Ukraine: +561 cases (now 53075), +3 deaths (now 974) since a day ago — Los Rios, Chile: +269 cases (now 18662), +11 deaths (now 218) since a day ago08:32
BrainstormNew from r/WorldNews: worldnews: Experts caution against the new Covid variant spreading rapidly in NYC → https://is.gd/0eGvHR08:41
BrainstormNew from r/Coronavirus: Daily Discussion Thread | February 26, 2021: The World Health Organization maintains up-to-date and global information. Please refer to our Wiki for additional information. You can find answers to frequently asked questions about Covid-19 and vaccines in our FAQ . → https://is.gd/7vSAd309:06
BrainstormNew from StatNews: Andrew Cuomo’s Covid-19 nursing home fiasco shows the ethical perils of pandemic policymaking: Once a pandemic star, Andrew Cuomo’s handling of nursing home data poses an existential threat to his career. His mistakes offer lessons on ethical policymaking in times of crisis. → https://is.gd/tgQDNo10:44
BrainstormNew from StatNews: Here are the contenders for STAT Madness 2021. Voting begins Monday: Research on Covid-19 dominates the bracket for this year’s #STATMadness, our annual competition in which readers choose the most important biomedical advance or discovery to emerge from U.S. labs in… → https://is.gd/ehz9JO10:57
BrainstormNew from r/WorldNews: worldnews: Don't be selfish - get a COVID shot, says UK's Queen Elizabeth → https://is.gd/Al88OL11:51
BrainstormNew from r/WorldNews: worldnews: Chinese woman spent six months behind bars for Covid-19 social media post, court document shows → https://is.gd/PG8ICU13:50
BrainstormNew from ScienceNews: Can a COVID-19 vaccine’s second dose be delayed? It’s complicated: New data indicate that delaying second doses of COVID-19 vaccines may still provide protection, but some scientists aren’t convinced it’s OK. → https://is.gd/t5P9kL14:03
BrainstormUpdates for Dem. Rep. Congo: +547 cases (now 25691), +7 deaths (now 707) since 3 days ago — Malta: +258 cases (now 21982), +2 deaths (now 313) since a day ago14:41
BrainstormNew from Derek Lowe: @Dereklowe: Every so often someone sends me some Naomi Wolf statement on the pandemic and asks me what I think. → https://is.gd/hRSAHW14:41
CoronaBot/r/covid19: Single-dose BNT162b2 vaccine protects against asymptomatic SARS-CoV-2 infection (83 votes) | https://www.authorea.com/users/332778/articles/509881-single-dose-bnt162b2-vaccine-protects-against-asymptomatic-sars-cov-2-infection | https://redd.it/lsuhzw15:37
BrainstormNew from Derek Lowe: @HelenBranswell: RT by @Dereklowe: Can't watch the entire #VRBPAC meeting today on whether J&J's #Covid vaccine should be issued an emergency use authorization? @matthewherper & I have you covered. We're live blogging. Check back here often. https://www.statnews.com/2021/02/26/tracking-an-fda-advisory-panels-meeting-on-jjs-covid-19-vaccine/https://is.gd/VNql7D15:49
BrainstormUpdates for Germany: +9205 cases (now 2.4 million) since 22 hours ago — Switzerland: +1065 cases (now 554932), +8 deaths (now 9961) since 20 hours ago16:01
-RSSBot[LjLmatrix- Feed: Nota della Presidenza del Consiglio ( http://www.governo.it/it/articolo/nota-della-presidenza-del-consiglio/16332 )16:10
BrainstormNew from BMJ: Covid-19: Young mother should be allowed to die in “almost unbearable” tragedy, says ȷudge: A High Court judge has ruled that a 32 year old woman with covid-19, in a coma after giving birth to a son, should be allowed to die against the wishes of her husband and sister, in “a tragedy of... → https://is.gd/JzcmUf16:12
bin_bashwow that is absolutely tragic16:43
de-facto.title https://imgur.com/a/obvWrPE https://i.imgur.com/bV1n3u3.png "COVID-19 Germany: Cases and Reproduction" source: https://www.rki.de/DE/Content/InfAZ/N/Neuartiges_Coronavirus/Projekte_RKI/Nowcasting.html17:03
Brainstormde-facto: From imgur.com: COVID-19 Germany: Cases and Reproduction - Album on Imgur17:03
de-factoimho we need much more strict containment in Germany. Opening schools and businesses is an ASTRONOMICAL mistake. Reproduction already is back to exponential prior to those additional effects from opening kicking in. And reproduction will increase even further with the exponential rise of the new more reproductive VoCs17:13
de-factoIdk what happened to the ministers of federal states, they are opening WITHOUT 1) any hygiene concepts 2) studies about transmission paths and prevention 3) testing strategies 4) any scientific approach. imho this is outright criminal directly against the common interest of the people. they even did not understand that this will prolong the negative impact on economy.17:16
de-factoi dont even find words about how much this infuriates me17:17
* de-facto goes for a walk to calm down17:17
Arsaneritmasks17:21
de-factobtw there is not even any rule allowing for those openings, we did NOT reach 50/100k or 30/100k weekly incidence and now for sure we wont reach that17:21
de-factoits just arbitrary, "we are opening because we can and without any concept. basta."17:21
de-factoeven against any better knowledge that case numbers are rising already17:22
de-factothis is determined to go wrong and it will be blamed on those that open now despite better knowledge. hopefully this will cost them their chair.17:23
ArsaneritIt won't cost them their chair.17:23
de-factobtw masks are already introduced, people are wearing them already, they wont change anything unless not worn anymore, then reproduction will increase even further17:45
de-factothat is what i mean: current containment efforts in Germany already are saturated (being fully in effect since introduced long enough ago), now reproduction returning into exponential (hence uncontrolled) mode indicating containment is not sufficient anymore, hence instead of taking back restrictions we need more efficient containment (either more restrictions or better targeting transmission paths)17:49
de-factoso actually exactly the opposite is needed to what the ministers of federal states just decided to do on their own17:49
LjLWe're taking off :(  (Italy, and Milan in particular)17:50
de-factoits public knowledge that 1) B.1.1.7 has more reproduction (actually quite a lot 150%-180%), its been observed in many countries independently already 2) increased contact rates and mobility directly correlate to increase in reproduction 3) testing, tracing and isolating can work against that but has to be embedded into properly researched hygiene concepts targeting most probable transmission paths17:52
de-factoministers know all that, they have been briefed on it by the experts and scientists17:52
de-factothats also public knowledge, they cant claim they did not know better17:53
* de-facto 's walk could not calm him down17:53
de-factosad thing is this is to be expected, we are talking about this pretty much since christmas or earlier already17:54
de-factoand politicians also did know that, partially blocking some travel routes (obviously not strict enough to prevent even import of Brazil variants)17:56
de-factonuff ranting, sorry about that17:57
de-factoLjL, does Milan have its own dashboard?18:03
LjLde-facto: no, not even Lombardy does, instead they publish a daily table (in image format) with the day's numbers on it... and they got me pretty annoyed because recently they have removed the distinction they used to have between the city of Milan and the rest of the Milan province. True, they don't have it for other cities/provinces, but Milan is bigger by far. But anyway I look at the data on the Sole 24 Ore website where they are kind enough to provide18:05
LjLgraphs of the "worst" provinces18:05
LjLhttps://lab24.ilsole24ore.com/coronavirus/en/#box_3  (assuming the # works for you, and also i know you hate cumulative data but you can see the spike anyway)18:06
LjL(small-for-now spike, recent spike, but spike nonetheless)18:06
LjLand nationally we have about 20k new cases today, first time we pass the 20k line in... i dunno, months18:07
de-factoin ff that id works18:07
de-factodo they provide sequencing data somewhere?18:07
de-factowold be interesting to know more about VoCs18:07
de-factoor non-compliance as origin for increase in reproduction18:08
LjLyou're assuming we sequence :P18:08
LjLi don't know though18:08
LjLyou saw that in that global.health site italy isn't represented18:08
Arsaneritvaccines?18:08
ArsaneritIf enough risk groups are vaccinated can we allow higher infection rates due to lower relative hospitalisation rate?18:09
LjLvaccines yes, here https://github.com/italia/covid19-opendata-vaccini but i don't need to look at them, we are barely vaccinating18:09
de-factono because once out of control it will explode right into out facec18:09
LjLthe main national data are here https://github.com/pcm-dpc/COVID-1918:10
ArsaneritWe just give up and let it explode?18:10
de-factoand if that is the case ICU care stations will fill with young people in their best age for working and producing income for families etc18:10
LjLand i don't see variant or sequencing data there18:11
de-factoyet by then incidence will be completely out of control, with no hope to get it under control in short term, it would be catastrophic to open and let things go their own dynamics18:11
de-factoLjL,  i wish they would provide those graphs with incidence rather than cumulative cases at lab2418:12
BrainstormNew from BBC Health: Coronavirus spread slowed by vaccines, study suggests: There was a 75% reduction in staff at Addenbrooke's Hospital testing positive after a vaccination. → https://is.gd/ha92Jl18:12
de-factoyet i guess for all of Italy its "New daily tests and confirmed cases" with "Trend persone testate" seems to rise similar to Germany18:14
de-factoi fear we might see some rise like in October soon if not actively prevented18:15
de-factoletting it out of control would also be the worst scenario for economy because at some point (e.g. ICUs filling rapidly with young) we will realize we need to regain control and by then with such massive incidence we dont have any chance to trace and track that, only a very strict and very long lockdown could bring it down again then18:22
de-factothats what would give the most damage for economy18:23
de-factothats also why i get so angry, we almost were in reach of regaining control and now incidence is being increased almost on purpose18:24
de-factoi dont understand why they do that though as long as the assumption holds that they act in the interest of economy and the people18:24
de-factoimho work should be invested into putting all this to a final end not to prolong it indefinitely with breeding new variants etc18:31
de-factowhat would be wrong with zero-covid? Isn't that what both economy (being able to open again) and the people (not being threatened with a disease with uncertain outcome) would benefit from the most?18:33
de-factowhy do we need to maintain at least some level of covid infecitons so it always could rebounce again?18:33
de-factoi dont get this.18:33
LjL-MatrixYou're fighting windmills, Europe isn't NZ and zero covid is never going ti happen unless perhaps we get a variant so dangerous that everyone finally gets real scared18:38
LjL-MatrixAnyway incidence of the UK variant appears to be 37% in Italy, but that's from hearsay, I don't know where the data are if anywhere18:39
de-factothat sounds like a realistic number to me18:42
de-factosimilar in Germany, i expect the majority (more than 50%) of new infections to come from B.1.1.7 from begin/early March18:43
de-factowell since our current strategy (barely containment, always scratching the line where it gets out of control) does not seem to work (even after trying for more than a year), maybe a change in strategy (towards zero-covid with zero-tolerance) would be required if the goal is to get rid of problems caused by COVID?18:45
LjL-MatrixThere's almost more people without masks around where I'm walking than people with. Imagine zero covid18:47
de-factonot sure if that assumption (that the goal is to avoid problems caused by COVID) holds anymore observing the current decisions it looks more like they aim to prolong lockdown and keep new infections alive18:47
de-factohere everyone wears FFP2 masks already and just 4 days after they removed nightly curfew incidence began to rise again. now they opened schools this week without any testing or concepts incidence further on the rise18:49
de-factonot sure about new variants, they are easy to blame for everything, yet that would be denying that the same containment measures are effective against transmission of the new VoCs, hence only have to be forced to be compliant to more strictly18:51
de-factobtw outdoors people are not wearing masks here either, and if not near to other people it probably does not make any difference (well maybe even wetting their masks is not such a brilliant idea after all)18:53
de-factobut indoors in stores etc i would say 99% are wearing FFP218:53
de-factoif the price for containment depends on a limited set of resources (not al least compliance of people), why not invest them in the most efficient way (concentrate in both time and space on preventing transmission paths) hence profit from synergistic effects instead of wasting such resources on loosing time with R~1 or even R>1 scenarios?19:00
Arsanerit99% wearing FFP2?  Where is that?  I see people wearing FFP2, KN95, or surgical masks.19:01
BrainstormNew from StatNews: STAT+: Cigna’s Evernorth to acquire telehealth company MDLive: Riding a wave of pandemic-fueled momentum for virtual care, Cigna subsidiary Evernorth is acquiring telehealth provider MDLive. → https://is.gd/MnDz5X19:01
de-factowell ok or KN95 i have not read the label on all of them19:01
de-factobut surgical masks became quite rare here19:01
de-factoeven the kids are wearing FFP2 in stores19:02
ArsaneritIn a PDF hidden on the website of the Kreis, it appears that in a local park there are mandatory masks.  At the park itself there is no visible attempt to inform people of this obligation, and very few people follow it.19:02
de-factoidk i just wear masks in the presence of other people, regardless of indoors or outdoors, if i assume i could smell a cigarette from other people i am wearing my mask.19:04
BrainstormUpdates for Netherlands: +5089 cases (now 1.1 million), +54 deaths (now 15522) since 21 hours ago — Germany: +10125 cases (now 2.4 million) since 23 hours ago — United Kingdom: +6179 cases (now 4.2 million), +223 deaths (now 122263) since 23 hours ago19:08
de-factobtw USA is not exporting any vaccines, EU does export to the whole world19:13
de-factohttps://www.dw.com/en/opinion-with-covid-vaccines-joe-biden-keeps-america-first-stance/a-5648337119:17
BrainstormUpdates for Italy: +40359 cases (now 2.9 million), +253 deaths (now 97227) since 23 hours ago19:20
-RSSBot[LjLmatrix- WHO Disease Outbreak News: Human infection with avian influenza A (H5N8) – the Russian Federation ( http://www.who.int/entity/csr/don/26-feb-2021-influenza-a-russian-federation/en/index.html )19:21
LjLwell masks here are mandatory indoors and outdoors, so it would be nice if people fucking wore them19:23
LjLalso Brainstorm is full of crap, it's around +20000 today which is bad enough but not +4000019:23
BrainstormNew from Ars Technica: Science: A 3rd shot? A new booster? Vaccine makers race to trials to beat variants → https://is.gd/PIJpxG19:26
LjLde-facto, did you see the tweet yesterday about the *viable* virus found somewhere in the guts after 90 days? i think you were probably sleeping19:27
CoronaBot/r/coronavirus: Fully vaccinated people can gather individually with minimal risk, Fauci says (10374 votes) | https://www.cnn.com/world/live-news/coronavirus-pandemic-vaccine-updates-02-26-21/h_a3d83a75fae33450d5d2e9eb3411ac70 | https://redd.it/lsxtyf19:33
LjL"The Siren study, run by Public Health England, suggested one dose of Pfizer reduced the risk of infection by 70% and two doses by 85%. The Oxford-AstraZeneca vaccine is thought to reduce infections by around two-thirds." "The regular swabbing showed 17 in 1,000 unvaccinated staff were testing positive in mid-January while only four in 1,000 staff who had had their first dose were positive." https://www.bbc.com/news/health-5621175519:39
LjLthat doesn't seem *so* impressive... not as much as data from Israel19:39
LjL%title https://twitter.com/jburnmurdoch/status/136534236023477863219:45
BrainstormLjL: From twitter.com: error parsing title ('NoneType' object has no attribute 'string')19:45
LjLmeh. graphs of vaccine effect in the UK19:45
LjLthey don't seem *so* great to me either... sure there looks to be a reduction, but at this point i think almost all 80+ people are vaccinated, so i'd have hoped for more of a reduction19:45
generaso, they test and approve vaxes in U65 and then use them in Ü65 and the number are different? who would have thought19:47
de-factohmm hmm are there similar curved for decline of incidence in UK? how do they know its vaccine effect and not different behavior of young and elderly?19:48
de-facto*similar curves19:48
de-factoand in terms of vaccine efficiency, this is all very fascinating and i am looking forward to seeing more data (especially from Israel) about their effect in transmission, yet i dont see any way it would change the strategy to vaccinate everyone as fast as possible with any vaccine safe enough to be administered19:54
de-factoany hesitant strategy or compromise works in favor of virus reproduction hence against economy and health19:55
de-factoimho we should do our best to bring down incidence as fast as possible, hence fire out of all barrels with everything we have (ofc based on scientific methods and while sticking to schemes approved by vaccine trials etc)19:59
BrainstormNew from NPR: 'A Very Concerning Shift': CDC Head Warns Of Recent Uptick In COVID-19 Cases: Dr. Rochelle Walensky, director of the Centers for Disease Control and Prevention, said at a Friday briefing that infectious new variants may be threatening to derail the country's recent progress. → https://is.gd/HhhpGb20:07
-RSSBot[LjLmatrix- Feed: Comunicato stampa del Consiglio dei Ministri n. 4 ( http://www.governo.it/it/articolo/comunicato-stampa-del-consiglio-dei-ministri-n-4/16333 )20:15
de-factoLjL, nope that instance of nitter showed me the rate limiting red card and i did not investigate further about that viable virus after 90 days from the guts20:17
de-factois it a published preprint somewhere?20:18
asdflkjnitter.dark.fail seems reliable to me20:36
asdflkjof course if many people start using it, it probably won't be. I wish nitter (and invidious, bibliogram, etc.) automatically switched backend servers or just used proxies to switch IPs without requiring the end user to switch domains20:38
de-factowhy dont they do some DNS round robin or such?20:39
de-factoseems URIs are the same as in https://twitter.com/profshanecrotty/status/136510728901153997020:40
de-factoquite interesting they are speculating about long covid being due to some virus reservoir not cleared out completely by normal "recovery" and only the higher levels of immunity reached by vaccinations may be able to do so for ~40% of people. They put much emphasis on it being speculative20:43
LjLasdflkj, yeah my bot doesn't have any provision to switch RSS sources so i need to find an instance that's reliable but then it stops being reliable :\20:44
LjLde-facto, the study linked is https://www.nature.com/articles/s41586-021-03207-w which i did not realize is a study i've already seen (the one where the abstract claims 44% of their observed patients have long COVID, and that it is consistent with other studies), but it also claims B cell evolution is "consistent" with continued presence of the virus, but then deeper into the study it seems to study images (like the one Shane Crotty put in the tweet) that20:45
LjLwould demonstrate this presence20:45
LjLi would give a look at his other tweets too20:45
LjLthis gives some hope: https://twitter.com/profshanecrotty/status/1365107279427760128 apparently, anecdotically, long COVID patients improve after vaccination20:46
de-factothat picture they have in twitter looks similar but different to the one in that study though20:46
LjLhmm20:47
LjLi don't know, maybe he has access to a later version of the preprint20:48
LjLpretty maddening though that he does the same thing stupid newspaper article do20:49
LjL"this excellent work......." WHAT work?20:49
de-factoah no its in the long pdf tail20:50
de-factodoes load very slowly in my evince for some reason20:50
de-factoext data fig 10 a20:50
de-factoso yeah its that study indeed20:51
BrainstormNew from Virological.org: Latest posts: Preliminary in silico assessment of the specificity of published molecular assays and design of new assays using the available whole genome sequences of 2019-nCoV: Updated to 612,842 COVID-19 WGS from GISAID. Table 1. Results from PSET analysis. The five Noblis assays were compared alongside the four assays from [... want %more?] → https://is.gd/v0wnDZ20:54
LjLde-facto, i think even though it's scary to hear, the media should highlight long COVID research more. tell people "even if you're young, when you catch COVID you have almost 50% chance that the virus stays in your body and you remain sick for a long time and maybe forever. do you want to use your mask now?"20:54
de-factohmm idk if it would stay forever though i have not read that paper yet, it looks like a LOT of very interesting data in there20:57
LjLof course i don't know either, but 6 months is a pretty long time, long enough that my default assumption would be that it stays a potentially indefinite amount of time20:57
de-factoare there any bacteria with ACE2?20:57
LjLi'm not going to wait 80 years (when i won't be alive anyway) to say "okay, long COVID can stay forever"20:58
LjLde-facto, i think it's quite specific to mammals21:01
LjLor not. maybe birds too21:01
LjLhttps://www.laboratoryequipment.com/567534-Genomic-Analysis-Reveals-Many-Animals-May-be-Vulnerable-to-SARS-CoV-2-Infection/21:02
LjLthe ACE2 article on wikipedia is extremely human-specific21:03
LjL"We identified 410 unique vertebrate species with ACE2 orthologs (Dataset S1), including representatives of all vertebrate taxonomic classes. Among these were 252 mammals, 72 birds, 65 fishes, 17 reptiles, and 4 amphibians."21:03
de-factook just asking because of possible locations where human antibodies could not reach easily21:03
LjLde-facto, i thought you meant the virus might reproduce in our bacteria and not actually in our cells anymore21:05
de-factoyeah21:05
LjLbut i guess if it damages our gut bacteria then it can be a problem for ourselves too21:05
de-factothats what i meant actually, if it could infect our gut bacteria it constantly would be a supply (not easily reachable by antibodies) where it constantly could spill over to the intestine cells21:06
de-factobut that probably is not possible (idk though=21:07
LjLbut i think prokaryotes are definitely out... dunno about eukaryotic "bacteria" (which aren't bacteria, but i suppose we have some in our guts, like yeast)21:08
de-factodo bats clear from CoVs or they dont do that due to a different immune system?21:08
de-factoafaik there are quite a lot of ACE2 receptors on small intestine etc21:10
-RSSBot[LjLmatrix- Recent Commits to links:master: Add study about the susceptibility of ACE2 receptors in many animal s… ( https://github.com/ljl-covid/links/commit/9562b1b7b29cdbfd0275dcb47a28975a5a21e9de )21:11
LjLafaik bats don't fully clear these viruses, they keep them under control instead21:11
LjLbut bats do have a fairly unique immune system from what i've read21:12
de-factoyeah thats what i remember about them too21:13
LjLi think it's safe to write in the resource page that there is replicating virus after months based on this study21:15
LjL"Immunofluorescence and PCR analyses of intestinal biopsies obtained from asymptomatic individuals at 4 months after the onset of coronavirus disease 2019 (COVID-19) revealed the persistence of SARS-CoV-2 nucleic acids and immunoreactivity in the small bowel of 7 out of 14 individuals."21:15
LjLsure it doesn't say "there's definitely replicating virus" there, but seriously can we still be clearing bits of RNA after 4 months?21:15
LjLand then the rest of the study seems to go in some detail to determine it's actual replicating virus21:15
LjLeven though the abstract doesn't make that claim21:15
de-factoso if CoVs managed to coexist with bats, would they have developed some strategy to evade sterilizing immunity (hence idling around) without causing too many problems? if so how different is the immune response in that regard (seem from the perspective of those CoVs) to the responses of other mammals e.g. humans etc21:16
LjLmy understanding when i read about bats is that their immune system evolved to keep pathogens under control instead of trying to eradicate them completely, likely because their ability to fly causes a lot of cellular stress and so you're going to have fragments of cellular DNA all over the place when they're flying, and that would create autoimmune responses if their immune system worked like ours21:20
LjLi don't remember where i read about this21:21
de-factoso in order to sail "under the radar" by such a threshold it would be beneficial for a pathogen to have some strategy to modulate immune responses or hide in some places where non-neutralizing immunity could not easily reach it?21:24
de-factoi have to admit that i dont know enough about bats immune system to estimate how similar it appears from the perspective of the CoVs to that reaction of other mammals21:25
LjLde-facto, i don't know, but 1) i understand that this is more of a characteristics of bats' immune system than the viruses evolving to do that, and 2) this study seems to say that it finds *immune reaction* to viral antigens in the guts, so if they're still replicating, they *are* also getting caught by the immune system. no idea why "not enough to die"21:25
-RSSBot[LjLmatrix- Recent Commits to links:master: Add study about possible long-term virus presence in the guts ( https://github.com/ljl-covid/links/commit/9265b5f9b024e2faf450220af58b06e3d8772c72 )21:26
de-factoi did not read the study (for some reason my eyes are inflamed) but i am looking forward to do so soon21:27
de-factoi think the masks i wear are not airtight at the top and i constantly exhale into my own eyes, also too much screen work is not so good21:27
de-factoyeah i also think its more a characteristic of the immune system of the bats, yet still that does not exclude that it would be a benefit for their pathogens to find a niche for coexistence with them21:28
lazysundaydreamsdont mention masks pls :)21:29
de-factohuh?21:29
lazysundaydreamshave 2 days remaining to get a respirator and they're all sold out afaik and i really don't want to hike around the town to find one to buy.. fun thing is respirators are mandatory from monday here21:30
de-factooh well thats good that they become mandatory, it will help a lot for very little costs21:30
LjLde-facto, seems like it's eye infection season, i got one, someone else i know got one, and apparently you got something like that. but yeah i've also had the experience of eyes being a bit inflamed due to the mask exhaust21:31
LjLde-facto, maybe before making them mandatory they should make sure there's enough supply so that people can buy them easily and without price speculation, though21:31
de-factoi think its a common problem, all FFP2 masks i have seen on people did not fit airtight at the top (around the nose)21:31
de-factomaybe they fit better for asian faces? :D21:31
de-factoyeah of course @ supply21:32
lazysundaydreamsI was just working from home and dog had back ache so i wasnt anywhere last week.. yea I'm for mandatory respirators if they were readily available at the closest (larger) store21:32
de-factoLjL, i even was thinking about if some sort of clamp around the nose at the top where those metal bars are supposed to ensure tight fit could solve that very common problem21:32
lazysundaydreamsbut I feel the madness, I am surely not the last one having this issue atm21:32
LjLde-facto, i suspect the 3M i have which has a foam layer around the nose largely solves this problem, but it ain't cheap21:33
de-factohmm that might be a good idea indeed, i did not had that problem with my FFP3 either now that you mentioned it21:34
de-facto(and them having that foam too)21:34
de-factobut it had a valve21:34
LjLi go to amazon, type in "ffp2", and there's an endless list of almost identical masks, all of the "vertical beak" kind, which you probably associate to Asian faces, i don't know if that could be an actual reason, but what's for sure is they don't fit very well21:34
de-factoso maybe with a valve the pressure during exhaling also does not rise high enough to lift it from the nose and blow into the carriers eyes21:35
LjLde-facto, this is the one i have, a fair bit cheaper right now on .de than when i bought it on .it, but i guess it's even cheaper if you buy in bulk https://www.amazon.de/-/en/9320-Folding-Respirator-Mask/dp/7264996107/21:36
LjLi don't know if it's the valve, but maybe trying one of these won't hurt21:36
LjLanyway the shape is very different from those "asian" masks21:36
de-factoyeah thats a good one21:37
de-factohmm but on that advertising photo there it does look like that women would also blow into her own eyes21:38
de-factohttps://images-na.ssl-images-amazon.com/images/I/51tcfoiIXvL._SL1000_.jpg21:38
LjLde-facto, in that photo you can also see she hasn't actually shaped the thing around her nose correctly :P21:38
LjLthere's a "hole"21:38
de-factoyeah thats what i meant21:39
LjLanyway, what i don't like about that mask are that the elastic band seem very short (uncomfortable to put up, although they don't hurt once you've done that, but it will be worse for people with long hair) and rather flimsy (that's an impression, they haven't broken yet)21:39
LjLwell, it can definitely be shaped better than that woman does21:39
de-factoto me their concept looks quite well thought through, yet i am not sure if they would fit my face better (would have to try)21:40
de-factoid like to have some sort of plastic clamp to put on top of the masks to hold them airtight against left and right side of my nose to prevent exhaling into my own eyes21:41
LjLi sort of use my glasses as such a clamp21:42
de-factothats a good idea, maybe i should wear sunglasses21:42
de-factohmm21:42
LjLi have cheap semi-clear glasses21:42
de-factoactually that really might be a very good idea21:42
LjLthey can get fogged with masks, but i think it's also a good idea to protect your eyes21:42
BrainstormUpdates for Spain: +8341 cases (now 3.2 million), +329 deaths (now 69142) since a day ago — Germany: +9494 cases (now 2.4 million), +386 deaths (now 70033) since 22 hours ago — Canada: +2003 cases (now 861224), +36 deaths (now 21887) since 20 hours ago21:43
LjLde-facto, i really like this line https://www.amazon.de/s?k=bollé+contour the cost for what they are is great. there are plastic versions and metal versions. the lenses aren't *great*, you do get some reflections with the clear and ESP glasses.21:43
de-factohmm yeah they instantly get fogged to a level where i cant see a thing (just one exhale)21:44
LjLbut when you compare them to the "cheap" sunglasses that you usually find pre-scratched in shops... which are still around €30 or so...21:44
de-factojust tried with my sunglasses (similar to those)21:44
LjLhave you tried using the glasses themselvse to clamp down on the mask?21:45
de-factomaybe i could wear swimming glasses or such21:45
de-factopeople will think i am insane then though21:45
de-factoyes LjL just tried that21:45
de-factodoes not work for me unfortunately21:45
de-factothe glasses dont go down far enough to clamp it around my nose21:46
de-factothey only do it on the top21:46
LjLde-facto, if you have a mask similar to the 3M i showed just with a valve, and that doesn't fog or exhale into your eyes... then i'd try the same (ffp2 or ffp3 if you worry ffp2 isn't good enough) just without a valve. one ffp2 at €4.50 won't break the bank even if it turns out it doesn't do the trick21:46
de-factoyeah or i 3d print some sort of clamp21:47
de-factothose metal strips are pretty much ineffective because they are so thin21:47
LjLconsider if you clamp around your nose too hard you'll end up having to breathe with your mouth which is generally not great21:47
de-factoi can hold it airtight with my fingers, but i need my hands for other things usually21:49
de-factoi think this is a major problem, i did not see FFP2 fitting in that regard on any face here21:50
de-factothis probably is the main reason for leakage around their filtering abilities21:50
LjLi agree and i think the very cheap ones, especially since their filters are also hard to breathe through, are not really much better than a surgical masks in the end21:50
LjLunlike a surgical mask, they have no hydrophobic layer, too, so they'll get wet as well as sucking in general21:51
LjLi think to make respirators mandatory and expect it to bring good things, we'd all need better respirators21:51
de-factonot sure how they compare in that regard, but if they would be airtight around the nose at the top their filtering efficiency could unfold to their full extend (because it looks like elsewhere they do a good job at  fitting airtight)21:52
LjLthe ones i have don't do a great job even in other parts IMO21:52
LjLi mean, except the 3M21:53
de-factoi am a bit puzzled by that to be honest, because fitting should be part of their certification21:53
LjLjust the various random KN95 ones21:53
LjLde-facto, with the enormous worldwide influx of masks, do you seriously think they are "certified" beyond having a logo pressed on them?21:53
de-factoyeah i have those FFP2 but they look similar to those very common KN95 ones (and thats also the ones the last majority of people here have)21:53
LjLin fact there have been KN95 masks with HOLES from... the very "KN95" text being stamped in too hard with heat21:54
de-factoLjL, yeah sometimes my hopes are unrealistic i am aware of that...21:54
LjLi will believe a 3M is certified to do what it claims. when i wear it though i also realize there is a LOT more humidity in it due to its good fitting. which is good, but not good21:54
de-factoyeah it looks transparent (but is a thin closed transparent film of PP) for the text pressed on mine21:55
LjLde-facto, you always wear FFP2 masks at minimum, don't you? and yet you got a cold anyway. that'd make me think about whether the filtering specifications can be realistic21:55
de-factowell if they dont fit airtight around my nose the best filter could not protect me from exhaling into my own eyes (hence probably also not from inhaling completely unfiltered air)21:56
LjLbut as you said, the fitting is meant to be part of the specs too21:57
LjLand yet it isn't21:57
LjLso i'd default to assuming they don't necessarily meet ANY of the specs21:57
LjLwhich has been proven many times with random masks, where they filtered much much less than 95%21:57
de-factoall i am saying is that closing the main leakage would be the best benefit for their protective capabilities21:58
de-factoand since they are so wide spread it probably even could be of epidemiological relevance21:59
LjLand what i'm saying is you should probably just get better masks. sadly if everybody did that, there wouldn't be enough of them for everyone. but so it is... so the ones who know that the KN95s don't really filter well would do well to get better ones21:59
de-factosure but most people have those KN95-alike ones now, so if a clamp could significantly improve their protective capabilities it would be great22:00
de-factohavent tried it yet though i think it would be worth a try22:00
de-factoa quick google search showed that those FFP2 masks leak into the carriers eyes on every single photo with non-asian noses22:09
BrainstormUpdates for Netherlands: +5094 cases (now 1.1 million) since 22 hours ago22:14
de-factosince i can press it airtight against the sides of my nose with just two fingers id assume something like a circle with a missing section already could clamp it down similar to my fingers holding it down22:16
de-factosomething like a C chape22:17
de-facto*C-shape22:17
de-factohmm maybe the screw cap of a bottle cut into c-shape?22:18
de-factohmm nope not stable enough22:20
de-factojust tried it22:20
de-factohmm maybe a part of those flexible transparent plastic tubes they sell for aquarium equipment?22:25
de-factoBrainstorm: where to get a viable C-shape plastic clamp thingy from?22:26
ArsaneritShould I use medical tape around the nose?22:28
de-factosomething that is in every household would be awesome22:28
de-factowhy not if it works? i would not want to have tape on my face every day many hours22:30
ArsaneritI'm told it helps to reduce foggy glasses.22:32
de-factothats exactly one symptom of that issue22:32
de-factohmm a tube has not the correct geometry, it should have curvature like a torus22:34
ArsaneritI don't wear my mask many hours every day.  I'm not outside many hours every day.22:34
de-factolucky you22:34
de-factoa tube never will be good because its just a "rolled sheet"22:35
Arsanerityes22:35
de-factoa torus however could be easily "unrolled" because its surface would have tangential tension then22:36
de-factohence it should be a "plastic ring" with a missing section so it looks like a C-shape22:37
de-factotypo correction: a torus however couldn't easily be "unrolled"...22:39
CoronaBot/r/covid19: Vaccinating the oldest against COVID-19 saves both the most lives and most years of life (89 votes) | https://www.pnas.org/content/118/11/e2026322118 | https://redd.it/lt6fs522:40
BrainstormNew from r/Coronavirus: Coronavirus: Vaccines and Related Biological Products Advisory Committee – 2/26/2021 → https://is.gd/qV7LHA22:42
de-factoi think for me something with the radius of a screw top of a bottle would work quite well (but that one is not stable enough, not enough clamp force)22:44
de-factowouldn't that something that would be very easily produced by a plastic manufacturer?22:46
dav[m]1So this is a covid bed wetter forum where people stop acting like rational adults and act like hysterical zombies22:46
de-factohuh? what do you mean?22:47
dav[m]1Do you know they cannot diagnose the virus?22:47
de-factooh my.22:48
dav[m]1I take it from that you think they can22:49
dav[m]1Do some research please22:49
dav[m]1The pcr “test” is not a test22:49
de-factoi did and i am absolutely sure they can diagnose this virus extremely well.22:49
dav[m]1How are you absolutely sure?22:49
de-factobecause of what i see from the data22:50
dav[m]1What data?22:50
de-factotesting for infections and presence of the virus22:51
de-factook lets be open minded22:51
de-factowhere do you think the problems are with testing?22:51
dav[m]1The “test” isn’t a test. It generates material, genetic material. It under goes cycles. The number of cycles is arbitrary and varies from place to place. They have nothing to test it against to set how many cycles to do. You should really look into it22:54
de-factook so where is the problem with those tests?22:54
de-factoi am not quite sure you understood how they are working22:55
dav[m]1Arbitrary cycle thresholds22:55
de-factothey are not arbitrary, they are calibrated against each machine specific thresholds22:55
de-factoof course not every machine got the same thresholds, but they are calibrated against known samples22:56
de-factohence CT-values are not directly comparable but only comparable for the same machine or pipeline22:56
de-factotests are done by taking samples (hence results only as good as those samples). it depends where they are taken from and at which stage of the disease (the virus infects different parts of the body at different stages)22:57
dav[m]1They are arbitrary. They do not have a gold standard to test it against that’s why the ‘false positive” and all this talk of cases when people aren’t ill22:58
de-factovirus fragments are cleared away constantly from mucus surfaces etc, so if virus fragments can be taken from a sample its quite safe to assume they originated from an ongoing replication supply that took place not too long ago (otherwise they would have been cleared away already)22:59
dav[m]1Where is this wrong then https://youtu.be/Q9GccuvNs9U22:59
de-factoidk it your video, i dont want to watch it23:00
de-factothe samples contain viral RNA (the "source code" recipe for cells how to build new virus particles) and there are primers that fit on specific sections of that RNA (for example the s-protein or the n-protein etc)23:01
dav[m]1Where this fails is they haven’t shown causal link between what they claim is virus and ill people and only ill people should have what they claim is virus23:01
de-factowell some people are asymptomatic carriers (which presence of virus in PCR tests and also the ability to infect other people) but dont show symptoms themselves23:02
de-facto*with presence of the virus23:02
de-factoso for example if such people would be allowed to visit elderly homes without tests they could infect those vulnerable elderly (and for them it probably is much more severe with many fatal outcomes)23:03
dav[m]1The pcr test doesn’t identify virus. That’s false, it identifies fragments which they don’t know are unique to virus23:04
de-factoof course those fragments are unique to the virus, the primers are designed to fit only to those RNA sections that are highly specific (only present) in the SARS-CoV-2 virus23:05
dav[m]1You should watch the video.23:05
de-factoand as i explained above the presence of those fragments originate from replicating virus if taken from mucus surfaces23:05
ubLIX[m]de-facto: could you for once just not engage these idiots23:06
de-factoi dont watch videos, how could i answer to all what they state is wrong? this is torture i dont want to undergo23:06
de-factoubLIX[m], sorry23:06
ubLIX[m]ty23:06
BrainstormNew from FDA Press Releases: FDA: Coronavirus (COVID-19) Update: February 26, 2021 → https://is.gd/AQXrCj23:08
qpoq[m]Do you guys know anyone personally that got the vaccine?23:19
de-factoyeah medical workers and i have to say i envy them23:20
BrainstormNew from NPR: FDA Panel Votes For Emergency Use Of Johnson & Johnson's COVID-19 Vaccine: The Food and Drug Administration typically follows the advice of its expert advisers. A quick agency decision on the Johnson & Johnson vaccine is expected given the state of the pandemic. → https://is.gd/brQlTY23:20
qpoq[m]<de-facto "yeah medical workers and i have "> Are they doing alright? What are the symptoms they got?23:21
de-factoafaik they only got a sore arm and a bit of fatigue23:22
de-factoat least thats what a friend of mine 35y female told about BNT162b223:23
de-factocorrection: sore injection place on the deltoid muscle at her arm23:24
pugusasqpoq[m]: I had no symptoms just 1-2 days soreness23:30
pugusasI know a guy who had CV+ 6 months ago, and seems to be having flu-like Sx with 1st injection23:30
de-factoafaik those that already seroconverted before vaccination (by recovering from COVID) rise an even higher level of immunity compared to immunologic-naive being vaccinated23:32
BrainstormNew from Ars Technica: Science: We’ll likely have a 3rd COVID vaccine soon; J&J vaccine clears last hurdle → https://is.gd/95nyGG23:33
de-factopugusas, which of the vaccines did you had?23:33
pugusasBNT23:34
de-factonice23:35
pugusaswe spoke about it before23:35
de-factoyeah i remember now23:35
BrainstormUpdates for France: +16947 cases (now 3.7 million), +240 deaths (now 85822) since 21 hours ago23:35
de-factoi think you had a different nick though23:39
de-facto.title https://ec.europa.eu/commission/presscorner/detail/en/STATEMENT_21_64723:53
Brainstormde-facto: From ec.europa.eu: Press corner | European Commission23:53
de-factoStatement 17 February 2021 Brussels "Statement by President von der Leyen at the Read-out of the College meeting/Press conference on the HERA Incubator to anticipate the threat of coronavirus variants"23:54
de-factothis is very important and good if done as intended23:56

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