Nick #RespiratorsFilterPathogensšŸ˜· Anderegg Profile picture
#DevRel, Coder, Writer, Raconteur. #LongCovid ally/loudmouth. šŸ‡ŗšŸ‡øinšŸ‡ØšŸ‡¦ he;cis;bi. Tweets: research analyses, public health, cognition, linguistics, ADHD, tech
15 subscribers
Oct 9 ā€¢ 16 tweets ā€¢ 6 min read
NEW STUDY! This exploratory study identifies a SPECIFIC PHENOTYPE OF LONG COVID that appears related to NEUROMUSCULAR DISTURBANCE rather than lung damageā€”and they've termed it Complex Ventilatory Dysfunction!

Breakdown of the paper (thread written for a general audience!)...

1/ Published Oct 7, 2024: "A new phenotype of patients with post-COVID-19 condition is characterised by a pattern of complex ventilatory dysfunction, neuromuscular disturbance and fatigue symptoms"  Abstract:  Background Patients with post-COVID-19 condition frequently suffer from chronic dyspnoea. The causes and mechanism for dyspnoea in these patients without evidence of structural lung disease are unclear.  ...  Results ... A pattern of reduced forced vital capacity (FVC), but normal total lung capacity (TLC), termed complex ventilatory dysfunction ... was observed and occurred mo... Broadly speaking, there are two groups of acute covid outcomes involving dyspnea (shortness of breath) as a long-term symptom:

- Severe cases that may have physical lung damage
- "Mild" cases that now have ME/CFS-like features, but who have no evidence of lung damage!

2/ "Current evidence suggests that cellular damage, a robust innate immune response with inflammatory cytokine production and a procoagulant state induced by SARS-CoV-2 infection are factors potentially contributing to post-COVID-19 sequelae such as dyspnoea, fatigue, and cognitive and mental disturbances... Dyspnoea has been well characterised as a major clinical symptom of post-COVID condition after severe and critical COVID-19 and is correlated with impaired lung function in terms of pulmonary restriction, and with reduced diffusion capacity as a possible consequence of pulmonary remod...
Sep 22 ā€¢ 24 tweets ā€¢ 12 min read
NEW STUDY! It VERY thoroughly supports the hypothesis that SARS-CoV-2 emerged as a zoonotic spillover event in the Huanan Seafood Wholesale Marketā€”using multiple methods!

Breakdown of the paper (written for a general audience!)...

1/many (but it's worth it, I promise!) Published Sep 19, 2024 in Cell: "Genetic tracing of market wildlife and viruses at the epicenter of the COVID-19 pandemic"  Highlights: - Common ancestor of SARS-CoV-2 linked to Huanan market matches the global common ancestor - Wildlife mitochondrial DNA identified in samples from stalls positive for SARS-CoV-2  Abstract:  "... We demonstrate that market-linked severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) genetic diversity is consistent with market emergence and find increased SARS-CoV-2 positivity near and within a wildlife stall. We identify wildlife DNA in... This paper reanalyzes the same data from the April 2023 paper in Nature that cast doubt on the Huanan Market hypothesis (pictured).

In the new paper published in Cell this week, another group conducted far more detailed (and statistically sound) analyses!

2/
Original paper that analyzed this same data: "Surveillance ofSARS-CoV-2 at the Huanan Seafood Market"  "Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the causative agent of coronavirus disease 2019, emerged in December 2019. Its origins remain uncertain. It has been reported that a number of the early human cases of coronavirus disease 2019 had a history of contact with the Huanan Seafood Market...."
"...It should be noted that the selection of shops for sampling was biased because shops selling wildlife as well as shops linked to early cases were prioritized for sampling. The origin of the virus cannot be determined from the analyses available so far. Although gene barcode analysis of animal species in the study suggested that Myotis, Nyctereutes and Melogale-species that have been recognized as potential host species of sarbecoviruses-were present at the market, these barcodes were mostly detected within the SARS-CoV-2 RT-qPCR-negative samples from the environment. It remains pos...
Sep 10 ā€¢ 25 tweets ā€¢ 12 min read
Want to see 13 academic cry-bullies throw a hilarious, peer-reviewed tantrum?

The real gold is in the 943-word "Competing Interests" section!

I also discovered that ONE OF THE AUTHORS WROTE HIS OWN WIKIPEDIA PAGE šŸ¤£šŸ¤£

Thread...

1/19
Zero-covid advocacy during the COVID-19 pandemic: a case study of views on Twitter/ X  by Kasper P. Kepp, Kevin Bardosh, Tijl De Bie, Louise Emilsson, Justin Greaves, Tea Lallukka, Taulant Muka, J. Christian Rangel, Niclas Sandstrƶm, MichaƩla C. Schippers, Jonas Schmidt-Chanasit & Tracy Vaillancourt
"The advocacy, although timely and informative, often appealed to emotions and values using anecdotes and strong criticism of authorities and other scientists."  So what's the problem? The rest of this sentence is just tone policing and/or paternalism.   "Risks were emphasized about childrenā€™s vulnerability, Long COVID, variant severity, and Mpox, and via comparisons with human immunodeficiency viruses (HIV)."  Why is this being framed as a bad thing if the advocacy is timely and informative?  "Far-reaching policies and promotion of remedies were advocated without s...
Kasper P. Kepp "has been engaged in the pandemic debate in Danish media and social media, where he has been critical of the studied zero-covid groups"

It's wildly unethical to conduct a study *specifically* targeting entities you've personally had conflict with.

2/ Ethics declarations  Competing interests  The authors do research in public health, epidemiology, biochemistry, virology, biostatistics, policy, politics, education and student experience, pediatrics, mathematical modeling, data science, and psychology relevant to the claims made by the studied advocacy in the paper but with no direct association to the studied advocacy.  Kasper P. Kepp has unpaid research affiliations with METRICS, Stanford, and Epistudia, Bern, has published or submitted a dozen papers on COVID-19-related research (SARS-CoV-2 mutation evolution, public health, and epidemi...
Sep 9 ā€¢ 23 tweets ā€¢ 8 min read
NEW PREPRINT! Another study about ABNORMAL BLOOD CLOTTING related to SARS-CoV-2, but unlike the others I've covered, this isn't related to the spike protein.

Turns out that Mpro, a viral protease [pro-tee-ace], can START the cascade.

Thread (written for everybody!)...

1/many bioRxiv preprint posted Sept 5, 2024: "The Main protease (Mpro) from SARS-CoV-2 triggers plasma clotting in vitro by activating coagulation factors VII and FXII."  "Here we show that the SARS-CoV-2 main protease (Mpro) can play a direct role in the activation of the coagulation cascade. Adding Mpro to human plasma from healthy donors increased clotting probability by 2.5-fold. The results of enzymatic assays and degradomics analysis indicate that Mpro triggers plasma clotting by proteolytically activating coagulation factors zymogens VII and XII at their physiological activat... Here's the takeaway: The *Main protease* (Mpro) of SARS-CoV-2ā€”an enzyme that cuts up viral polyproteinsā€”can also cleave a few host coagulation factors in a way that ACTIVATES them and BEGINS the blood clot cascade.

So that's uh... that's not ideal.

2/ "In conclusion, in this work we provided several pieces of experimental evidence showing that Mpro can induce plasma clotting by proteolytically activating FVII and FXII, which in turn can initiate the extrinsic and intrinsic pathways of blood coagulation, with a final pro-coagulant effect. This non-canonical mechanism highlights a possible novel function of Mpro in vivo that, in addition to the 'cytokine and bradykinin storm' mechanism, can contribute to the pathogenicity of SARS-CoV-2 in COVID-19."  ---  Activates blood clotting factors that are at the beginning of the coagulati...
Aug 30 ā€¢ 11 tweets ā€¢ 4 min read
Whenever I summarize a research paper about the SARS-CoV-2 spike protein, people always ask if the S proteins from the vaccines will do the same thing. It's a fair question!

mRNA vaccines are MUCH less likely to cause spike-related problems than an infection! Here's why...

1/
First, the spike protein used in the mRNA vaccines isn't the same as the spike protein on the actual virus! The US-approved mRNA vaccines (and Novavax) use a stabilized version of the protein that DOES NOT cause many of the issues that the wild SARS-2-S protein does!

2/ Image
Aug 26 ā€¢ 27 tweets ā€¢ 13 min read
NEW STUDY! This one confirms A LOT of other results.

Turns out, SARS-CoV-2 infection can cause lasting EPIGENETIC MODIFICATIONS, which effectively results in ACCELERATED BIOLOGICAL AGING.

Let's dive in! (Breakdown thread written for a general audience...)

1/many Published Aug 20, 2024 in "Clinical Epigenetics": "Epigenetic patterns, accelerated biological aging, and enhanced epigenetic drift detected 6 months following COVID-19 infection: insights from a genome-wide DNA methylation study"  ---  "Our study provides valuable insights into the epigenetic consequences of COVID-19. Results suggest possible associations with accelerated aging, epigenetic drift, and the disruption of critical biological pathways linked to insulin resistance, immune response, and vascular health. Understanding these epigenetic changes could be cruc... This one is dense, so I'll start with the takeaways, then some background, then the details.

The authors conclude that SARS-CoV-2 exposure may have "associations with aging, [stochastic epigenetic mutation] accumulation, and dysregulation in critical pathways."

2/ "In conclusion, these results provide comprehensive insights into the epigenetic consequences of SARSCoV-2 exposure after 6 months, emphasizing potential associations with aging, SEM accumulation, and dysregulation in critical pathways linked to insulin resistance, immune response, and vascular function."
Aug 21 ā€¢ 21 tweets ā€¢ 9 min read
NEW PREPRINT! This one seems potentially very, VERY SIGNIFICANT!

This study found "significant reductions in measures of mitochondrial content and impaired muscle energetics" in LC fatigueā€”AND a corresponding biomarker!

Summary thread (for a general audience!)...

1/many Preprint posted on Aug 20, 2024 to medRxiv: "Soluble IL-2R impairs muscle cell mitochondrial respiration in fatigued individuals with post-acute sequelae of COVID-19."  Abstract: "...This study aimed to investigate the underlying mechanisms of PASC-related fatigue by examining skeletal muscle function and circulating factors in aļ¬€ected individuals.  We conducted a cross-sectional case-control study of patients with fatigue-associated PASC who had experienced mild to moderate COVID-19 without hospitalization. Skeletal muscle biopsies revealed reduced mitochondrial respiration ... So as you probably know (or at least, should know), prolonged fatigue is one of the most common and significant long-term consequences of COVID, even after mild cases.

Studies have pointed to the T cell response having an impact on mitochondrial function.

2/ "Prolonged fatigue stands out as one of the most prevalent and debilitating complaints in patients with PASC. This fatigue is often accompanied by unexplained muscle and joint pain, suggesting a potential link to underlying musculoskeletal pathology. Recent studies have associated PASC fatigue with structural and functional mitochondrial abnormalities in skeletal muscle, pointing towards a possible mechanistic explanation for the persistent symptoms. Notably, PASC patients exhibit elevated T cell levels and dysregulation of both humoral and cellular immune responses. This immune dysreg...
Aug 18 ā€¢ 22 tweets ā€¢ 9 min read
This preprint (from April 5) is FASCINATING. Someone requested I have a look at it, and I'm glad they did, because it made SO MANY separate things suddenly make sense.

Here's a look at how a specific type of MICROCLOTS may be associated with LONG COVID pathology...

1/many Preprint posted April 5, 2024: "Increased fibrinaloid microclot counts in platelet-poor plasma are associated with Long COVID"  Abstract: "...The pathophysiology underlying Long COVID remains unclear but appears to involve multiple mechanisms including persistent inflammation, coagulopathy, autoimmunity, and organ damage. Studies suggest that microclots, also known as fibrinaloids, play a role in Long COVID. In this context, we developed a method to quantify microclots and investigated the relationship between microclot counts and Long COVID. We show that as a cohort, platele... This thread will have three things:
- Takeaways of this study
- Breakdown of the method they developed
- How these findings connect with other known patterns

This is a study that looks at some rugged little blood clots that come courtesy of the SARS-CoV-2 spike protein.

2/ "Studies suggest that microclots, also known as fibrinaloids, play a role in Long COVID by blocking capillaries, limiting oxygen exchange, and potentially causing microvascular pulmonary thrombosis and multiple organ failure. Amyloid-containing deposits, resembling microclots, have also been observed in increased numbers in muscle tissue biopsies from people with Long COVID compared to samples from controls, and these numbers increase after exercise, an important observation as many people with Long COVID experience post-exertional symptom exacerbation after activity. However, the depo...
Aug 15 ā€¢ 20 tweets ā€¢ 9 min read
My thoughts on this new finding? AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

"The consumption of BW [bottled water] is associated with heightened risk for certain health conditions," such as:
- hypertension (+5% increased risk)
- diabetes (+9%)
- GI ulcers (+21%)
- kidney stones (+17%)

1/10 Published Aug 15, 2024 in IJERPH: "Consumption of Bottled Water and Chronic Diseases: A Nationwide Cross-Sectional Study"  Abstract: "...On average, a liter of bottled water includes about 240,000 tiny pieces of plastic. ... Utilizing data from the Italian National Institute of Statisticsā€™ ā€œAspects of Daily Lifeā€ survey (N = 45,597), we employed logistic regression to explore the correlation between BW consumption and the prevalence of various chronic diseases,... Adjustments were made for covariates such as education, age, gender, and economic resources. Our analysis indicat... This was a very large cross-sectional study that looked at a national population, conducted by Italy's census agency. They controlled for covariates including socioeconomic status, age, and gender, then clustered and stratified the population as appropriate.

Solid methods!

2/10
"Data on BW consumption were obtained from the ā€œAspects of Daily Lifeā€ survey on households, conducted by the Italian National Institute of Statistics (ISTAT) [19]. ... The aim of the survey is to identify a variety of behavioral dimensions and aspects of daily life. ... We analyzed data from the 2021 edition of the survey, which included 45,597 individuals and 20,000 families, focusing on those who were 18 years or older at the time of the survey. ... a distinct stratum of municipalities with larger populations, labeled as self-representative (SR), and other municipalities, designated...
"The following variables were included in the analysis: educational level, age, gender, economical resources in the last 12 months, body mass index, smoking, alcohol consumption, physical activity, hypertension, diabetes, presence of kidney stones, presence of gastric or duodenal ulcer."
Aug 9 ā€¢ 30 tweets ā€¢ 12 min read
New interdisciplinary review was published on current Long COVID science, with a roadmap for science and policy!

It is written in plain language, so it's worth a read on its own, but I just want to pull out some highlights about what WE DO KNOW into a single thread...

1/many Published Aug 9, 2024 in Nature Medicine: "Long COVID science, research and policy"  Abstract: "Long COVID represents the constellation of post-acute and long-term health effects caused by SARS-CoV-2 infection; it is a complex, multisystem disorder that can affect nearly every organ system and can be severely disabling. The cumulative global incidence of long COVID is around 400 million individuals, which is estimated to have an annual economic impact of approximately $1 trillionā€”equivalent to about 1% of the global economy. Several mechanistic pathways are implicated in long... This is definitely the definition for Long COVID I'll be explicitly using from now on: Long COVID is "the constellation of post-acute and long-term health effects caused by SARS-CoV-2 infection."

2/ "Long COVID is best defined as the constellation of post-acute and long-term health effects caused by SARS-CoV-2 infection. Long COVID was initially reported by patients who coined the term and, through research and advocacy, drove much of the progress in understanding this condition over the past several years (Fig. 1)."
Aug 7 ā€¢ 10 tweets ā€¢ 4 min read
Can't believe I missed this!

This review/commentary piece makes one thing extremely clear: We do not yet have ANY STRONG EVIDENCE about how SARS-CoV-2 infection affects PREGNANCY.

The limited evidence shows there IS harm, which may be MITIGATED by vaccination.

Thread...
1/ Published July 11, 2024 in eClinicalMedicine: "In need of robust evidence of non-association of pregestational and early pregnancy SARS-CoV-2 infections with congenital anomalies"  Abstract: "SARS-CoV-2 infection during pregestational and early pregnancy periods has an unclear impact on fetal development. ..., potential effects on the developing fetal brain are plausible. ... This is further complicated by limitations, such as restricted testing access and undiagnosed infections, particularly in low- and middle-income countries. Most data focus on hospitalized women near term... What is the takeaway? There are three:

- Unanswered questions remain about the effect of SARS-CoV-2 on pregnancy.
- Evidence shows congenital anomalies MAY be associated with COVID.
- Evidence shows vaccination provides "protection from such anomalies."

2/
"Conclusion  There is a need for data collection regarding pregestational maternal SARS-CoV-2 infection and its association with future pregnancies. Given the relative rarity of intraplacental transmission of SARS-CoV-2, we will need large epidemiological studies to answer these questions. We should also stay vigilant, monitoring past infections and the effects of emerging strains in assisted reproductive technologies (ART) and early pregnancy outcomes.  Although we need better data on miscarriages, it should be noted that there is no association between COVID-19 vaccination and miscar...
"Of note, studies have demonstrated there were signiļ¬cant differences in eye, ear, face, and neck anomalies between the vaccinated and not vaccinated groups, showing vaccination protection from such anomalies. Similarly, it has been shown that COVID-19 vaccination is not related to nonsyndromic orofacial cleft and might protect against having a child affected with such congenital anomalies.  Thus, the data presented here should by no means be interpreted as associated with the vaccines, but the disease caused by SARS-CoV-2 infection.  Comprehensive systematic reviews and meta-analyses ...
Aug 6 ā€¢ 30 tweets ā€¢ 12 min read
THIS IS BIG. WOW. New paper in PLOS Pathogens has findings about:
- the effect of the SARS-CoV-2 spike protein on cardiac cells (and mitochondrial dysfunction!),
- a treatment to be investigated, and
- how this is NOT caused by mRNA vaccines!

Buckle up, we're diving in...

1/ Published August 5, 2024 in PLOS Pathogens: "SARS-CoV-2 spike-induced syncytia are senescent and contribute to exacerbated heart failure"  "Author Summary  In this paper, we directly linked SARS-2-S-triggered syncytium [fused cells] formation in the absence of infection with the ensuing induction of cellular senescence and its pathophysiological contribution to heart failure. We propose that both SARS-2-S expression and SARS-2-S protein internalization were sufficient to induce senescence in nonsenescent ACE2expressing cells. This is important because of the persistent existe... [This paper is an uncorrected proof; it's been peer-reviewed, but not copyedited yet.]

A bit of background: syncytia (sin-sih-sha) are giant cells with multiple nuclei that form from the fusion of multiple cells. Viral infections are a common cause of syncytia.

2/
"Abstract  SARS-CoV-2 spike protein (SARS-2-S) induced cellā€“cell fusion in uninfected cells may occur in long COVID-19 syndrome, as circulating SARS-2-S or extracellular vesicles containing SARS-2-S (S-EVs) were found to be prevalent in post-acute sequelae of COVID-19 (PASC) for up to 12 months after diagnosis. ... Here, we found that the senescent outcome of SARS-2-S induced syncytia exacerbated heart failure progression. We first demonstrated that syncytium formation in cells expressing SARS-2-S delivered by DNA plasmid or LNP-mRNA exhibits a senescence-like phenotype. Extracellular ...
NIH > National Library of Medicine Medical Subject Headings MeSH Descriptor Data 2024  Giant Cells (aka syncytia)  Multinucleated masses produced by the fusion of many cells; often associated with viral infections. In AIDS, they are induced when the envelope glycoprotein of the HIV virus binds to the CD4 antigen of uninfected neighboring T4 cells. The resulting syncytium leads to cell death and thus may account for the cytopathic effect of the virus.  Entry Term(s): Giant Cells, Multinucleated; Multinucleated Giant Cells; Polykaryocytes; Syncytia; Syncytium;
Aug 4 ā€¢ 17 tweets ā€¢ 7 min read
New preprint on the PATHOGENICITY of H5N1 was published yesterday, and... it's not good news, but it's definitely not *terrible* news either!

The delayed, lackluster response to the current outbreak remains DEEPLY concerning.

Here's a summary for a general audience!

1/many
Preprint published August 3, 2024: "Enhanced replication of contemporary human highly pathogenic avian influenza H5N1 virus isolate in human lung organoids compared to bovine isolate"  Abstract  "We compared virus replication and host responses in human alveolar epithelium infected with highly pathogenic avian influenza (HPAI) H5N1 viruses. A/Vietnam/1203/2004 replicated most efficiently, followed by A/Texas/37/2024, then A/bovine/Ohio/B240SU342/2024. Induction of interferon-stimulated genes was lower with A/Texas/37/2024 and A/bovine/Ohio/B24OSU-342/2024, which may indicate ...
They test three H5N1 isolates. I'll refer to them as:

- Texas: Isolated from worker at Texas dairy farm (A/Texas/37/2024)
- Bovine: Isolated from dairy cow (A/bovine/Ohio/B24OSU-342/2024)
- Vietnam: Isolated from fatal 2004 human infection in Vietnam (A/Vietnam/1203/2004)

2/
"As of July 25, 2024, 13 human cases of HPAI H5N1 virus infection have been confirmed in the United States (3). Several of these cases are linked to exposure to infected cattle. However, recent outbreaks in Colorado have resulted in identification of additional human cases linked to infected poultry (3). Virus isolated from a worker at a Texas dairy farm (A/Texas/37/2024) was shown to be closely related to viruses circulating in cattle, and it is presumed that this case is a result of direct cow-to-human transmission (4). Reported symptoms included conjunctivitis, as well as mild respi...
"This is in stark contrast to prior cases of HPAI H5N1 virus infection in humans, which resulted in severe respiratory disease and mortality rates upwards of 50% (6). In order to assess the risk of developing severe disease following infection with contemporary HPAI H5N1 virus, we evaluated virus replication, host cell survival, and induction of innate immune responses in human alveolar epithelium infected with A/Texas/37/2024 or cattle isolate A/bovine/Ohio/B24OSU-342/2024, compared to a historical H5N1 isolate A/Vietnam/1203/2004, which was derived from a fatal human case (7)."
Aug 4 ā€¢ 25 tweets ā€¢ 9 min read
This isn't a major paper, but it's an interesting jumping-off point for three different topics:

- Accuracy of RATsā€”in practice
- Understanding what descriptive (incl. Bayesian) statistics mean
- HOW rapid tests work

Here's a thread written for a general audience!

1/ Published Aug 2, 2024 in PLOS ONE: "Evaluation of COVID-19 rapid antigen test against polymerase chain reaction test in immunocompromised patients"  Abstract: "... Patients with Ct value less than 20, had the highest detection rate which is consistent with other studies in the literature. The sensitivity and specificity of Panbio Rapid Antigen testing were of 69.9% and 100%, respectively. A correlation between age group and false negative results could not be made, but a correlation between Ct value and false negative result was noticed, Ct value was directly related to false... This study was conducted from January 2020 to June 2021 using admission screening swabs from 556 oncology patients at a single hospital in Jerusalem.

The patients in this study were swabbed for both PCR and RAT, allowing for comparison of the detection ability.

2/ "Materials and methods Study design  This prospective study was conducted on 556 patients evaluated at Augusta Victoria Hospital (AVH) between January 2020 and June 2021. Patientsā€™ age range was from 1 month to 90 years of age with an average age of 41.8 years. Of the 556 patients, 481 (86.5%) were adult patients and 75 (13.5%) were pediatric patients. with an overall male to female ratio of 1:1.04.  Patients arriving at AVH with any signs of respiratory symptoms, were simultaneously evaluated for the presence of SARS-CoV-2 antigens by Panbio TM COVID-19 Ag Rapid Test Device and for th...
Jul 29 ā€¢ 37 tweets ā€¢ 15 min read
Let me start by saying AAAAAAAAAAAAAAAAAAAAAA.

Turns out SARS-CoV-2 RAPIDLY infects the NERVOUS SYSTEM long BEFORE it even enters the bloodstream.

These findings have huge implications! Here's an analysis of the study, written for a general audience. (Sorry in advance!)

1/many Published July 28, 2024 in IJMS: "SARS-CoV-2 Rapidly Infects Peripheral Sensory and Autonomic Neurons, Contributing to Central Nervous System Neuroinvasion before Viremia"  Abstract: "...little attention has been paid to susceptibility of the PNS to infection [by SARS-CoV-2] or to its contribution to CNS invasion. Here we show that sensory and autonomic neurons in the PNS are susceptible to productive infection with SARS-CoV-2 and outline physiological and molecular mechanisms mediating neuroinvasion. Our infection of K18-hACE2 mice, wild-type mice, and golden Syrian hamsters... Overall, it's pretty extensive: They examined the productivity of neuronal infection in multiple animal models and multiple neuronal cell cultures, and found productive neuronal infection across the board.

It's also a long one, but we'll pick up the pace as we go!

2/ Figure 3. SARS-CoV-2 infection of the olfactory bulb and various brain regions in hACE2 and WT mice. SARS-CoV-2 RNA was detected in increasing concentrations from 3 to 6 dpi in the olfactory bulb (a), hippocampus (b), cortex (c), brainstem (d), and cerebellum (e) of hACE2 and WT mice in both inoculum groups.
Jul 28 ā€¢ 30 tweets ā€¢ 11 min read
Big picture, these findings are bad for EVERYBODY, but ESPECIALLY for those still clinging to the fantasy of "natural immunity."

The takeaway? It's unclear if ANYONE has strong immunity to COVID infection!

Here's a deep analysis thread, written for a general audience!

1/many Published July 26, 2024 in Nature Medicine: "SARS-CoV-2 correlates of protection from infection against variants of concern"  Abstract: "Serum neutralizing antibodies (nAbs) induced by vaccination have been linked to protection against symptomatic and severe COVID-19. However, much less is known about the efficacy of nAbs in preventing the acquisition of infection, especially in the context of natural immunity and against SARS-CoV-2 immune-escape variants. Here we conducted mediation analysis to assess serum nAbs induced by prior SARS-CoV-2 infections as potential correlates ... The paper is fairly complex, but the takeaways are pretty straightforward, so I'll start with the highlights!

Method is robust, data collection was EXTENSIVE: It's a longitudinal study (follows the same individuals over time) with regular nasal swabs and blood draws!

2/ Figure 1: "Timing of cohort sample collections with respect to SARS-CoV-2 variantsā€™ circulations in the two study sites. a, Timing of the blood draws with respect to the SARS-CoV-2 epidemic waves in the rural site (Agincourt) of the PHIRST-C cohort. The bar plot represents the weekly incidence (per 100,000 population) of SARS-CoV-2 cases from routine surveillance data collected from the Ehlanzeni district in the Mpumalanga province (where rural participants reside). The shaded areas represent the timing of the serum sample collections for the ten blood draws. Each curve within the shad...
Jul 24 ā€¢ 21 tweets ā€¢ 7 min read
This preprint seems HUGE: It has CONCRETE DIAGNOSTIC CRITERIA for a specific subtype of LC!

The novel disease identified here is named "SARS-CoV-2 Persistent Intestinal* Epithelial Syndrome (SPIES)"!

Gastrointestinal LC has a new name! Thread, for a general audience...

1/20 Identification of SARS-CoV-2 Persistent Intestinal* Epithelial Syndrome (SPIES) as a Novel Disease Entity using Clinical, Histologic, and RNA Programmatic Data  The "Infectious" in the title is a typo, as they use "Intestinal" in the rest of the paper. I guess they were also excited to get it posted! I love this preprint because, not only does it make a specific subtype of LC into a tangible medical artifact, but it also identifies the way in which SPIES differs from similar conditions, like IBS!

2/
Jul 23 ā€¢ 14 tweets ā€¢ 5 min read
FIRST: This paper DOES NOT HAVE CLINICAL VALUE. It is NOT about treatment!

With that out of the way: WOW, WOW, WOOOW.

"After six years, 44.1% of the [ME/CFS patients treated with cyclophosphamide] scored an SF-36 PF of at least 70, and 17.6% of at least 90..."

Summary ā¬‡ļø

1/13 CAVEAT: These findings have NO practical use outside of a research setting! "Cyclophosphamide... should not be used for ME/CFS patients outside of clinical trials."  Conclusions:  "After six years, 44.1% of the cyclophosphamide group scored an SF-36 PF of at least 70, and 17.6% of at least 90, suggesting that cyclophosphamide in a subgroup may modulate the disease course in a beneficial way. However, cyclophosphamide carries toxicity concerns and should not be used for ME/CFS patients outside clinical trials. Rather, these data should encourage efforts to better understand th... The clinical trials (conducted last decade) were based on the hypothesis that a subset of ME/CFS patients are experiencing an autoimmune condition; this study is the six-year follow-up!

The interesting result here is the impact of cyclophosphamide (from the CycloME trial)

2/ Six-year follow-up of participants in two clinical trials of rituximab or cyclophosphamide in Myalgic Encephalomyelitis/Chronic Fatigue Syndrome  Abstract:  "Objectives  In this six-year follow-up study, we used patient-reported outcome measures (PROMs) to compare values at baseline, at 18 months, and at six-year follow up from the CycloME and the RituxiME trials.  Methods  Based on the hypothesis that ME/CFS in a subgroup of patients is a variant of an autoimmune disease, we performed two clinical trials between 2014 and 2017. The RituxVE trial was a randomized, double-blind and place...
Jul 19 ā€¢ 12 tweets ā€¢ 5 min read
An interesting re-analysis was published today: "Remdesivir treatment does not reduce viral titers in patients with COVID-19"

Basically, remdesivir has no impact on *viral load* in acute COVID!

Here's a summary of the findingsā€”and controversyā€”for a general audience!

1/12 Remdesivir treatment does not reduce viral titers in patients with COVID-19  "ABSTRACT  The relationship (or lack thereof) between the clinical activity of remdesivir and its ability to reduce viral titers in patients with COVID-19 has not been fully delineated. There is a misconception that remdesivir was FDA-approved for COVID-19 due to its ability to reduce viral titers. Here, we analyze all clinical studies of remedesivir in COVID-19 that quantifed SARS-CoV-2 titers. As of 28 June 2024, we show there is no significant decrease in SARS-CoV-2 viral titers in patients treted with remd... Initially, remdesivir received emergency FDA approval because in one NIH-sponsored trial, the remdesivir group recovered quicker than the control group. That's ALL.

It was trialed because it does seem to be a great drug in cell cultures in the lab!

2/
"Remdesivir (RDV) was the first FDA-approved treatment for COVID-19 based on results from the NIH-sponsored ACTT-1 trial demonstrating shorter time to recovery in patients with severe COVID-19 treated with remdesivir compared to placebo (10 vs 15 days, respectively) (1). While RDV demonstrated benefit in ACTT-1, its efficacy and clinical benefit have been marginal-to-ineffective in other contexts, making its FDA approval controversial. Several subsequent randomized controlled trials (RCTs) found no benefit with RDV treatment compared to placebo or the standard of care (SOC) (2-4), incl...
"Marginal clinical benefit with RDV treatment calls into question whether there is a relationship between the mechanism of viral load inhibition with RDV treatment and corresponding clinical outcomes. RDV is a prodrug of an ATP-analogue (GS-443902) that exhibits broad-spectrum antiviral activity (5). GS-443902 exhibits low Km for SARS-CoV-2 RNA-dependent RNA polymerase (RdRp) and cell-based assays have demonstrated low nanomolar EC50 values in SARS-CoV-2 infected cells treated with remdesivir (68)(9). Cells infected with SARS-CoV-2 and treated with remdesivir in vitro also show dose-de...
Jul 18 ā€¢ 16 tweets ā€¢ 6 min read
NEW study in the Journal of Hospital Infection has found that, even from a purely economic perspective, the LACK OF MITIGATIONS currently present in healthcare settings MAKES NO SENSE!

Of course, preventative measures save LIVES, too.

Here's a quick analysis...

1/16 Admission screening testing of patients and staff N95 masks are cost-effective in reducing COVID-19 hospital acquired infections  "Findings: Compared to no admission screening testing and staff surgical masks, all scenarios were cost saving with health gains. Staff N95s + RAT admission screening of patients was the cheapest, saving A$78.4M [95%UI 44.4M-135.3M] and preventing 1,543 [1,070-2,146] deaths state-wide per annum. Both interventions were individually beneficial: staff N95s in isolation saved A$54.7M and 854 deaths state-wide per annum, while RAT admission screening of patients... This study is out of Australia, where patients who acquire COVID after their admission to the hospital are 50% more likely to die within 90 days.

When over 10% of the patients in the hospital are there BECAUSE of hospital-acquired infections, the problem is obvious.

2/ "... Hospital-acquired COVID-19 infections occur when patients admitted for non-COVID-19 reasons acquire COVID-19 following exposure to staff, other patients or visitors, and infection prevention and control measures are insufficient to prevent transmission. As well as being a patient safety risk, hospital-acquired infections carry significant costs to the health system [2-4]. [...] In the state of Victoria, 15-25% of patients in hospital with COVID-19 between June 2022-June 2023 acquired their infection after admission, with 90-day mortality of 18.9% compared to 12.3% among matched pa...
Jul 15 ā€¢ 15 tweets ā€¢ 6 min read
Because the "benefit of the doubt" is often brought up here, I want to make it clear that there is NO DOUBT that, if you willingly stopped masking, you made an empirically-harmful CHOICE.

Let's see what was known and when, starting with a commentary out of Italy in Aug 2021!

1/
"COVID-19: why not learn from the past?"  DOI: 10.1007/s11684-021-0883-0 Obviously, different countries were going to take different approaches, but right out of the gate, much of the US/Euro response was based on empirically-unfounded dogma.

To begin with, many of the CRITICAL lessons from SARS were ignored by "opinion leaders."
2/
"What information was available about SARS in the scientific literature before the COVID-19 pandemic?  Laboratory practices and medical treatment guidelines were published during and shortly after the 2003 SARS outbreak, regarding coronavirus identification by RT-PCR, epidemiology, and containment strategies. Clinical chemistry guidelines [22], diagnosis based on RT-PCR [23-26] and indications for therapeutic treatment were readily available from the experience with SARS. Although this knowledge was available well before the COVID-19 pandemic, much of it was "rediscovered" in...
"Similarly, the use of hyper-immune serum from recovered patients was indicated among the successful therapeutic interventions during the SARS outbreak [29] and was apparently rediscovered, as a new and innovative strategy, during the COVID-19 pandemic. Also the increased incidence of Kawasaki-like disease (or rather "syndrome" as this clinical presentation of the SARS-CoV-2 infection in children is now called), had been described during the SARS outbreak, and has occurred again during the COVID-19 pandemic [30], as should have been expected, given the much larger prevalence ...