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cvanderloo

3 medical innovations fueled by COVID-19 that will outlast the pandemic - 0 views

  • When COVID-19 struck, mRNA vaccines in particular were ready to be put to a real-world test. The 94% efficacy of the mRNA vaccines surpassed health officials’ highest expectations.
  • DNA and mRNA vaccines offer huge advantages over traditional types of vaccines, since they use only genetic code from a pathogen – rather than the entire virus or bacteria.
  • Gene-based vaccines also produce precise and effective immune responses. They stimulate not only antibodies that block an infection, but also a strong T cell response that can clear an infection if one occurs.
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  • These devices can measure a person’s temperature, heart rate, level of activity and other biometrics. With this information, researchers have been able to track and detect COVID-19 infections even before people notice they have any symptoms.
  • Wearables can detect symptoms of COVID-19 or other illnesses before symptoms are noticeable. While they have proved to be capable of detecting sickness early, the symptoms wearables detect are not unique to COVID-19.
  • So a logical way to look for new drugs to treat a specific disease is to study individual genes and proteins that are directly affected by that disease.
  • But this idea of mapping the protein interactions of diseases to look for novel drug targets doesn’t apply just to the coronavirus. We have now used this approach on other pathogens as well as other diseases including cancer, neurodegenerative and psychiatric disorders.
sanderk

Coronavirus Tips: How to Protect and Prepare Yourself - The New York Times - 0 views

  • The coronavirus continues to spread worldwide, with over 200,000 confirmed cases and at least 8,000 dead. In the United States, there have been at least 8,000 cases and more than 100 deaths, according to a New York Times database.
  • Most important: Do not panic. With a clear head and some simple tips, you can help reduce your risk, prepare your family and do your part to protect others.
  • That might be hard to follow, especially for those who can’t work from home. Also, if you’re young, your personal risk is most likely low. The majority of those who contract coronavirus do not become seriously ill, and it might just feel as if you have the flu. But keeping a stiff upper lip is not only foolhardy, but will endanger those around you.
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  • Avoid public transportation when possible, limit nonessential travel, work from home and skip social gatherings. Don’t go to crowded restaurants or busy gyms. You can go outside, as long as you avoid being in close contact with people.
  • If you develop a high fever, shortness of breath or another, more serious symptom, call your doctor. (Testing for coronavirus is still inconsistent — there are not enough kits, and it’s dangerous to go into a doctor’s office and risk infecting others.) Then, check the Centers for Disease Control and Prevention website and your local health department for advice about how and where to be tested.
  • Wash your hands, wash your hands, wash your hands. That splash-under-water flick won’t cut it anymore.
  • Also, clean “high-touch” surfaces, like phones, tablets and handles. Apple recommends using 70 percent isopropyl alcohol, wiping gently. “Don’t use bleach,” the company said.
  • To disinfect any surface, the C.D.C. recommends wearing disposable gloves and washing hands thoroughly immediately after removing the gloves. Most household disinfectants registered by the Environmental Protection Agency will work.
  • There’s a lot of information flying around, and knowing what is going on will go a long way toward protecting your family.
  • Right now, there’s no reason for parents to worry, the experts say; coronavirus cases in children have been very rare. The flu vaccine is a must, as vaccinating children is good protection for older people. And take the same precautions you would during a normal flu season: Encourage frequent hand-washing, move away from people who appear sick and get the flu shot.
  • Unless you are already infected, face masks won’t helpFace masks have become a symbol of coronavirus, but stockpiling them might do more harm than good. First, they don’t do much to protect you. Most surgical masks are too loose to prevent inhalation of the virus. (Masks can help prevent the spread of a virus if you are infected. The most effective are the so-called N95 masks, which block 95 percent of very small particles.)Second, health care workers and those caring for sick people are on the front lines. Last month, the surgeon general urged the public to stop stockpiling masks, warning that it might limit the amount of resources available to doctors, nurses and emergency professionals.
  • Stock up on a 30-day supply of groceries, household supplies and prescriptions, just in case.That doesn’t mean you’ll need to eat only beans and ramen. Here are tips to stock a pantry with shelf-stable and tasty foods
  • No. The first testing in humans of an experimental vaccine began in mid-March. Such rapid development of a potential vaccine is unprecedented, but even if it is proved safe and effective, it probably will not be available for 12 to18 months.
  • If you’re sick and you think you’ve been exposed to the new coronavirus, the C.D.C. recommends that you call your healthcare provider and explain your symptoms and fears. They will decide if you need to be tested. Keep in mind that there’s a chance — because of a lack of testing kits or because you’re asymptomatic, for instance — you won’t be able to get tested.
  • That’s not a good idea. Even if you’re retired, having a balanced portfolio of stocks and bonds so that your money keeps up with inflation, or even grows, makes sense. But retirees may want to think about having enough cash set aside for a year’s worth of living expenses and big payments needed over the next five years.
Javier E

COVID-19: Individually Rational, Collectively Disastrous - The Atlantic - 0 views

  • One major problem is that stopping the virus from spreading requires us to override our basic intuitions.
  • Three cognitive biases make it hard for us to avoid actions that put us in great collective danger.
  • 1. Misleading Feedback
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  • some activities, including dangerous ones, provide negative feedback only rarely. When I am in a rush, I often cross the street at a red light. I understand intellectually that this is stupid, but I’ve never once seen evidence of my stupidity.
  • Exposure to COVID-19 works the same way. Every time you engage in a risky activity—like meeting up with your friends indoors—the world is likely to send you a signal that you made the right choice. I saw my pal and didn’t get sick. Clearly, I shouldn’t have worried so much about socializing!
  • Let’s assume, for example, that going to a large indoor gathering gives you a one in 20 chance of contracting COVID-19—a significant risk. Most likely, you’ll get away with it the first time. You’ll then infer that taking part in such gatherings is pretty safe, and will do so again. Eventually, you are highly likely to fall sick.
  • 2. Individually Rational, Collectively DisastrousWe tend to think behavior that is justifiable on the individual level is also justifiable on the collective level, and vice versa. If eating the occasional sugary treat is fine for me it’s fine for all of us. And if smoking indoors is bad for me, it’s bad for all of us.
  • The dynamics of contagion in a pandemic do not work like that
  • if everyone who isn’t at especially high risk held similar dinner parties, some percentage of these events would lead to additional infections. And because each newly infected person might spread the virus to others, everyone’s decision to hold a one-off dinner party would quickly lead to a significant spike in transmissions.
  • The dynamic here is reminiscent of classic collective-action problems. If you go to one dinner, you’ll likely be fine. But if everyone goes to one dinner, the virus will spread with such speed that your own chances of contracting COVID-19 will also rise precipitously.
  • 3. Dangers Are Hard to Recognize and Avoid
  • Many of the dangers we face in life are easy to spot—and we have, over many millennia, developed biological instincts and social conventions to avoid them
  • When we deal with an unaccustomed danger, such as a new airborne virus, we can’t rely on any of these protective mechanisms.
  • The virus is invisible. This makes it hard to spot or anticipate. We don’t see little viral particles floating through the air
  • In time, we can overcome these biases (at least to some extent).
  • Social disapprobation can help
  • We all should do what we can to identify the biases from which we suffer—and try to stop them from influencing our behavior.
Javier E

New research explores how conservative media misinformation may have intensified coronavirus - The Washington Post - 0 views

  • In recent weeks, three studies have focused on conservative media’s role in fostering confusion about the seriousness of the coronavirus. Taken together, they paint a picture of a media ecosystem that amplifies misinformation, entertains conspiracy theories and discourages audiences from taking concrete steps to protect themselves and others.
  • The end result, according to one of the studies, is that infection and mortality rates are higher in places where one pundit who initially downplayed the severity of the pandemic — Fox News’ Sean Hannity — reaches the largest audiences.
  • “We are receiving an incredible number of studies and solid data showing that consuming far-right media and social media content was strongly associated with low concern about the virus at the onset of the pandemic,”
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  • Administering a nationally representative phone survey with 1,008 respondents, they found that people who got most of their information from mainstream print and broadcast outlets tended to have an accurate assessment of the severity of the pandemic and their risks of infection.
  • But those who relied on conservative sources, such as Fox News and Rush Limbaugh, were more likely to believe in conspiracy theories or unfounded rumors, such as the belief that taking vitamin C could prevent infection, that the Chinese government had created the virus, and that the U.S. Centers for Disease Control and Prevention was exaggerating the pandemic’s threat “to damage the Trump presidency.”
  • “The effect that we measure could be driven by the long-term message of Fox News, which is that the mainstream media often report ‘fake news’ and have a political agenda,” Simonov said. “This could result in lowering trust in institutions and experts, including health experts in the case of the pandemic.”
  • Our results indicate that a one standard deviation increase in relative viewership of Hannity relative to Tucker Carlson Tonight is associated with approximately 32 percent more COVID-19 cases on March 14 and approximately 23 percent more COVID-19 deaths on March 28,
  • “If the results hold, the research demonstrates the influence that broadcast media can have on behavior,”
Javier E

Covid-19 pandemic and chaos theory: Why the future is impossible to precisely predict - Vox - 0 views

  • In Washington state, a person with the virus attended a choir practice, and more than half of the other singers subsequently got sick. In South Korea, a 29-year-old man went out to nightclubs; he was Covid-19 positive, and he has since been linked to at least 54 new cases. In China, nine people sitting in the path of an air conditioning vent in a restaurant all got sick, most likely from one person, as the duct blew viral particles across their faces.
  • Small things could have changed these outcomes. The clubber could have decided to watch TV instead of going out dancing. If the choir practice was rescheduled for the next day, maybe the person would have felt sick and stayed home. The air conditioner in the restaurant could have been turned off.
  • “Little shifts can have really disproportionately sized impacts” in a pandemic. And scientists have a name for systems that operate like this: chaos.
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  • An outbreak isn’t a double pendulum; it’s much more convoluted. Myriad chains of events, operating in overlapping networks, conspire to chart its course.
  • It’s the double pendulum, and as a physical object, it’s very simple: A pendulum (a string and a weight) is attached to the bottom of another. Its movement is explained by the laws of motion written by Isaac Newton hundreds of years ago.
  • But slight changes in the initial condition of the pendulum — say it starts its swing from a little higher up, or if the weight of the pendulum balls is a little heavier, or one of the pendulum arms is a bit longer than the other — lead to wildly different outcomes that are very hard to predict.
  • The double pendulum is chaotic because the motion of the first pendulum influences the motion of the second, which then influences the entire apparatus. There isn’t a simple scale or ratio to describe how the inputs relate to the outputs. A one-gram change to the weight of a pendulum ball can result in a very different swing pattern than a two-gram change.
  • It teaches us to understand the mechanics of a system — the science of how it works — without being able to precisely predict its future. It helps us visualize how something that seems like it should be linear and predictable just isn’t.
  • That’s why, when pressed, epidemiologists have to say they don’t know what’s going to happen.
  • Climate scientists clearly tell us adding CO2 to the air will increase global temperatures. Yet they argue about when the worst effects of climate change will be felt and how bad it will be
  • Still, they know the mechanics of outbreaks. The chaos “doesn’t necessarily mean we know nothing,” Kissler says. They understand the conditions that make an outbreak worse and the conditions that make it better.
  • There is a tough tension of the current moment that we all need to work through: The future is clouded in chaos, but we know the mechanics of this system
  • Here are the mechanics. Scientists know that if we let up on social distancing, without an alternative plan in place, the virus can infect more people. They know this virus is likely to persist for at least a few years without a vaccine. They know it’s very contagious. That it’s very deadly. They also know that its pandemic potential is hardly spent, and that most of the population of the United States and the world is still vulnerable to it.
  • Will residents keep up with mask-wearing and social distancing, even when their leaders relax regulations? Plus, there are scientific questions about the virus still not understood: Will it diminish transmission in a seasonal pattern? Do children contribute greatly to its spread? How long does immunity last after an infection? Why do some people breathe out more of the virus than others? The answers to these questions will influence the future, and we do not know the answers.
  • Scientists are still unraveling what makes the difference between a sprawling outbreak in one city and a more manageable one in another. Some of it is the result of policy, some is the result of demographics, some is about structural inequality and racism, and some comes down to individual behavior. Some of it is just luck. That’s chaos for you.
  • “I don’t see uncertainty as a lack of knowledge,” says Philipp Lorenz-Spreen, a physicist who studies the chaos of a different sort of viral dynamics. “I think it’s a fundamental part of how our world works. It’s not our fault we do not know where this all will go.”
  • Newton clearly told us what happens when an object drops from the sky. But follow his laws, and find that the path of a double pendulum is very, very difficult to predict.
  • There’s a simple mechanism that is helping me understand the many possible futures we face with the Covid-19 pandemic.
  • Epidemiologists are clearly telling us what happens when you bring masses of people together during a pandemic. But they can’t tell us the exact shape this outbreak will take.
Javier E

Never Had Covid? Omicron BA.4 and BA.5 May End Your Luck - Bloomberg - 0 views

  • Covid virginity is becoming more special now that it describes a shrinking minority. The lucky few, like weight-loss gurus, are only too happy to share their secrets to success.
  • Some sound quite reasonable, such as virologist Angela Rasmussen, who tweeted that despite resuming travel to scientific conferences, she’s remained uninfected by wearing high quality masks when warranted, skipping the hotel gym, eating outdoors and walking instead of cabbing if possible.
  • Others are more extreme, such as the expert who Tweeted that, among other measures, he sealed his N95 tightly on his face for the entire trip from the U.S. to Australia. He never removed it even to take a sip of water.
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  • But one piece of advice almost no one is giving? Be lucky. Pediatrician Neil Stone says that there’s no “secret” for staying Covid-19 free because there’s just too much luck involved.
  • As for me, I have some data that can, to an extent, quantify and explain my own good luck in avoiding Covid so far. I’m participating in a study on immunity which allowed me to learn that my blood still carries loads of antibodies induced by my vaccine and December booster shot, and no signs of any prior infection. Not everyone’s antibodies wane at the same rate, and in some people, the antibodies don’t wane much at all. (At some point it should become routine to collect this information to help people decide whether to get additional booster shots.)
  • My high level of vaccine antibodies probably explains my success more than my behavior. I make some effort to avoid Covid, but have been far from perfect. And I’ve been potentially exposed at least twice: Once last December, when someone at a small holiday gathering I’d attended developed symptoms the next day, and more recently, when I shared a large indoor space with two people who later tested positive. But according to my lab work, I’ve never had even a silent infection.
  • It’s possible I was protected by my high antibodies, or that some quirk of air flow meant I never breathed in enough virus to get sick. Or perhaps I benefited from a different form of luck. There’s another facet to immunity called the innate immune system, which acts as a first line of defense and sometimes knocks out a virus or other pathogen before it replicates enough to elicit the production of antibodies. Good innate immunity might help explain something many of us have experienced — not getting a cold or flu even when sleeping in the same bed with the sick person through the whole illness.
  • Stress, diet, general health and even sunlight might all affect innate immunity. So could other factors. There’s so much we still don’t know about the immune system. And that’s one reason we talk about “luck.”
  • understanding how the luck works could help other people avoid Covid, whether for the first time or for the second or third time. Taking a closer look at what passed for luck helped researchers like Gary Taubes discover that public health had obesity all wrong, and the standard high carb/low fat diets were causing people to gain weight.
Emily Horwitz

U.S. Stockpiles Smallpox Drug in Case of Bioterror Attack - NYTimes.com - 0 views

  • The United States government is buying enough of a new smallpox medicine to treat two million people in the event of a bioterrorism attack, and took delivery of the first shipment of it last week. But the purchase has set off a debate about the lucrative contract, with some experts saying the government is buying too much of the drug at too high a price.
  • Smallpox was eradicated by 1980, and the only known remaining virus is in government laboratories in the United States and Russia
  • Experts say the virus could also be re-engineered into existence in a sophisticated genetics lab.
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  • the government is paying more than $200 for each course of treatment.
  • But when stockpiling a smallpox drug was first proposed in 2001 after the Sept. 11 and anthrax attacks, it was expected to cost only $5 to $10 per course, said Dr. Donald A. Henderson, who led a government advisory panel on biodefense in the wake of those attacks. Dr. Henderson was a leader in the eradication of smallpox in the 1960s and is now at the Center for Biosecurity at the University of Pittsburgh Medical Center.
  • Smallpox has such a long incubation period that the vaccine can prevent disease even if it is given as late as three days after infection. Arestvyr may also prevent infection if given early enough, but that has not been proven.
  • the price being charged for a patented drug was a bargain compared with AIDS antiretrovirals that cost $20,000 a year and cancer drugs that cost more than $100,000 a year.
  • “There are 80 million courses of Tamiflu in the strategic national stockpile,” he said. “Smallpox is just as contagious and has 30 times the mortality. By measures like that, I’d say 2 million is on the low end.”
  •  
    After reading this article, I thought about how much fear and the perceived threat of terrorism can be used quite effectively as manipulative tools. The article seemed to suggest that, because the US is so afraid/wary of a bioterrorism attack involving smallpox, we were willing to pay an excessive amount of money for emergency-use vaccines.
grayton downing

Newborn Immune Systems Suppressed | The Scientist Magazine® - 0 views

  • sterile world of the womb, at birth babies are thrust into an environment full of bacteria, viruses, and parasites. They are very vulnerable to these infections for their first months of life—a trait that has long been blamed on their immature immune systems.
  • “This more intricate regulation of immune responses makes more sense than immaturity,” said Sing Sing Way, who led the study, “because it allows a protective response to be mounted if needed.” This may explain why newborn immune responses, though generally weak, also vary wildly between different babies and across different studies.
  • njecting 6-day-old mice with splenocytes (a type of white blood cell) from adults. Newborn mice are normally 1,000 times more suspectible to bacterial infections than adults, but despite receiving working immune cells, they became no less vulnerable.
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  • Way added that there might be other reasons why newborns should carry immunosuppressive cells
  • Baby formulas contain small amounts of arginine. Sidney Morris, a biochemist from the University of Pittsburgh, said that it may be important to avoid fortifying them with extra arginine, lest it swamps the arginase activity of CD71+ cells, releases the immune system, and causes problems for the developing infants’ guts.
  • “Whether the precise mechanism of immunosuppression is the same or different in each of these circumstances remains to be determined,” he said.
Javier E

How Social Status Affects Your Health - NYTimes.com - 0 views

  • If you want to see how status affects health, you have to isolate status from material wealth. How to do that? The easiest way is to observe a society in which there is minimal material wealth to contest and where there are limited avenues for status competition.
  • For several years, we studied the Tsimane forager-horticulturalists of Amazonian Bolivia, a small, preindustrial, politically egalitarian society in which status confers no formal privileges (such as coercive authority).
  • we found that even among the Tsimane, higher status was associated with lower levels of stress and better health.
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  • Along the banks of the Maniqui River and in adjacent forests, the Tsimane people hunt, fish and plant plantains, rice and sweet manioc. They live in villages that range in size from 30 to 700 people. During village meetings, decision making is consensus-based. No individual has the right to coerce anyone else.
  • that doesn’t mean there are no status distinctions. When you attend a Tsimane village meeting, you soon notice that the opinions of certain men are more influential during the consensus-building process. These same men are often solicited to mediate disputes or to represent villagers’ interests with outsiders.
  • My colleagues and I measured the social status of all the men from four Tsimane villages (nearly 200 men between the ages of 18 and 83), by asking them to evaluate one another on their informal political influence. The men also provided urine samples and received medical examinations from physicians
  • We found that Tsimane men with less political influence had higher levels of the stress hormone cortisol, which has many important physiological functions. This result persisted after controlling for other factors that might affect stress levels, including age, body size and personality.
  • In addition, we found that the less influential Tsimane men had a higher risk of respiratory infection, the most common cause of sickness and death in their society. Stress may contribute to this disparity in infection risk; when chronic, stress can dampen immune function.
  • Studying the same individuals over a four-year period, we also found that for men whose influence declined over time, greater declines were correlated with higher levels of cortisol and respiratory illness. Downward mobility is harmful, it seems, even in an egalitarian society.
  • Why might low status cause such stress for the Tsimane? One possibility is that status offers a greater sense of control.
  • Another is that status acts as a form of social insurance. Influential Tsimane men have more allies and food-production partners, who can be helpful in mitigating conflict, sickness and food shortage. The relative lack of such support may cause psychosocial stress.
  • It is interesting that even in industrialized societies, the status comparisons most consequential for psychosocial stress are often among individuals who live near one another or occupy the same social network, not individuals at opposite ends of the socioeconomic spectrum.
  • Those living just above the poverty line may resent welfare for those living just below it, and a millionaire may envy a multimillionaire more than he envies a billionaire.
  • The importance of relative status perceptions may have its roots in the small-scale societies of our ancestors, which were similar to that of the Tsimane. In such societies, both our political competitors and our cooperative partners were likely individuals with whom we interacted regularly.
  • As our society debates the effects of wealth inequality, the Tsimane help us understand why we care so deeply about relative social position — and why our health depends on it.
aprossi

Scientists probe whether West Africa's recent Ebola outbreak was from man who survived epidemic five years ago - CNN - 0 views

  • Scientists probe whether West Africa's recent Ebola outbreak was from man who survived epidemic five years ago
  • Scientists and global health officials are investigating whether the current Ebola outbreak in Guinea may have been triggered by a person who was first infected with the virus during the Ebola epidemic in the region five years ago.
  • The World Health Organization (WHO) is carrying out further investigations into the individual who appears to have had the virus lay dormant in their body.
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  • This would suggest infections may persist once people recover and have the potential to start a future outbreak.
  • The results suggest the latest outbreak "is the result of the resurgence of a strain that previously circulated in the West African outbreak
  • They decided to be extremely careful and continue sequencing on additional samples to obtain more complete sequences that will provide a safer answer, he added.
  • A sexually transmitted virus?
clairemann

The First Big Study On COVID-19 Reinfection Is Here. Here's What It Means. | HuffPost Life - 1 views

  • The possibility of coronavirus reinfection has been a concern since the first reports of people getting sick again began popping up in 2020
  • However, people ages 65 and older are far more likely than younger individuals to experience repeat infection.
  • Overall, they found that a very small percentage of the population — 0.65% — experienced reinfection.
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  • “Since older people are also more likely to experience severe disease symptoms and, sadly, die, our findings make clear how important it is to implement policies to protect the elderly during the pandemic,
  • The large new study out of Denmark did not examine the role of variants in reinfection, given the time frame of the research. So it does not offer any clues about whether variants make it more likely for someone to come down with COVID-19 more than once.
  • The Centers for Disease Control and Prevention recommends that people who have had COVID-19 should get vaccinated once it’s available to them, in large part because there is a slim chance they could become infected again if they come into contact with the virus.
anonymous

Pfizer Begins Testing Its Vaccine in Young Children - The New York Times - 0 views

  • Pfizer Begins Testing Its Vaccine in Young Children
  • Other drug makers have begun similar trials of their Covid-19 vaccines. If they work in children younger than 12 as expected, it will be easier for the U.S. to reach herd immunity.
  • Pfizer has begun testing its Covid-19 vaccine in children under 12, a significant step in turning back the pandemic.
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  • The trial’s first participants, a pair of 9-year-old twin girls, were immunized at Duke University in North Carolina on Wednesday.
  • Immunizing children will help schools to reopen as well as help to end the pandemic, said Dr. Emily Erbelding, an infectious diseases physician at the National Institutes of Health who oversees testing of Covid-19 vaccines in special populations.
  • An estimated 80 percent of the population may need to be vaccinated for the United States to reach herd immunity, the threshold at which the coronavirus runs out of people to infect.
  • “we were encouraged by the data from the 12 to 15 group,
  • Scientists will test three doses of the Pfizer vaccine — 10, 20 and 30 micrograms — in 144 children. Each dose will be assessed first in children 5 through 11 years of age, then in children ages 2 through 4 years, and finally in the youngest group, six months to 2 years.
  • After determining the most effective dose, the company will test the vaccine in 4,500 children
  • “It sounds like a good plan, and it’s exciting that another Covid-19 vaccine is moving forward with trials in children,”
  • Children represent 13 percent of all reported cases in the United States.
  • More than 3.3 million children have tested positive for the virus, at least 13,000 have been hospitalized and at least 260 have died
  • “We don’t know what the long-term effects of Covid infection are going to be,” Dr. Maldonado said.
  • Other vaccines have helped to control many horrific childhood diseases that can cause long-term complications, she added: “For some of us who’ve seen that, we don’t want to go back to those days.”
  • “So there’s a higher degree of confidence now in giving this vaccine to kids.”
  • “The more transparent you can be, the better.”
Javier E

The Disease Detective - The New York Times - 1 views

  • What’s startling is how many mystery infections still exist today.
  • More than a third of acute respiratory illnesses are idiopathic; the same is true for up to 40 percent of gastrointestinal disorders and more than half the cases of encephalitis (swelling of the brain).
  • Up to 20 percent of cancers and a substantial portion of autoimmune diseases, including multiple sclerosis and rheumatoid arthritis, are thought to have viral triggers, but a vast majority of those have yet to be identified.
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  • Globally, the numbers can be even worse, and the stakes often higher. “Say a person comes into the hospital in Sierra Leone with a fever and flulike symptoms,” DeRisi says. “After a few days, or a week, they die. What caused that illness? Most of the time, we never find out. Because if the cause isn’t something that we can culture and test for” — like hepatitis, or strep throat — “it basically just stays a mystery.”
  • It would be better, DeRisi says, to watch for rare cases of mystery illnesses in people, which often exist well before a pathogen gains traction and is able to spread.
  • Based on a retrospective analysis of blood samples, scientists now know that H.I.V. emerged nearly a dozen times over a century, starting in the 1920s, before it went global.
  • Zika was a relatively harmless illness before a single mutation, in 2013, gave the virus the ability to enter and damage brain cells.
  • The beauty of this approach” — running blood samples from people hospitalized all over the world through his system, known as IDseq — “is that it works even for things that we’ve never seen before, or things that we might think we’ve seen but which are actually something new.”
  • In this scenario, an undiscovered or completely new virus won’t trigger a match but will instead be flagged. (Even in those cases, the mystery pathogen will usually belong to a known virus family: coronaviruses, for instance, or filoviruses that cause hemorrhagic fevers like Ebola and Marburg.)
  • And because different types of bacteria require specific conditions in order to grow, you also need some idea of what you’re looking for in order to find it.
  • The same is true of genomic sequencing, which relies on “primers” designed to match different combinations of nucleotides (the building blocks of DNA and RNA).
  • Even looking at a slide under a microscope requires staining, which makes organisms easier to see — but the stains used to identify bacteria and parasites, for instance, aren’t the same.
  • The practice that DeRisi helped pioneer to skirt this problem is known as metagenomic sequencing
  • Unlike ordinary genomic sequencing, which tries to spell out the purified DNA of a single, known organism, metagenomic sequencing can be applied to a messy sample of just about anything — blood, mud, seawater, snot — which will often contain dozens or hundreds of different organisms, all unknown, and each with its own DNA. In order to read all the fragmented genetic material, metagenomic sequencing uses sophisticated software to stitch the pieces together by matching overlapping segments.
  • The assembled genomes are then compared against a vast database of all known genomic sequences — maintained by the government-run National Center for Biotechnology Information — making it possible for researchers to identify everything in the mix
  • Traditionally, the way that scientists have identified organisms in a sample is to culture them: Isolate a particular bacterium (or virus or parasite or fungus); grow it in a petri dish; and then examine the result under a microscope, or use genomic sequencing, to understand just what it is. But because less than 2 percent of bacteria — and even fewer viruses — can be grown in a lab, the process often reveals only a tiny fraction of what’s actually there. It’s a bit like planting 100 different kinds of seeds that you found in an old jar. One or two of those will germinate and produce a plant, but there’s no way to know what the rest might have grown into.
  • Such studies have revealed just how vast the microbial world is, and how little we know about it
  • “The selling point for researchers is: ‘Look, this technology lets you investigate what’s happening in your clinic, whether it’s kids with meningitis or something else,’” DeRisi said. “We’re not telling you what to do with it. But it’s also true that if we have enough people using this, spread out all around the world, then it does become a global network for detecting emerging pandemics
  • One study found more than 1,000 different kinds of viruses in a tiny amount of human stool; another found a million in a couple of pounds of marine sediment. And most were organisms that nobody had seen before.
  • After the Biohub opened in 2016, one of DeRisi’s goals was to turn metagenomics from a rarefied technology used by a handful of elite universities into something that researchers around the world could benefit from
  • metagenomics requires enormous amounts of computing power, putting it out of reach of all but the most well-funded research labs. The tool DeRisi created, IDseq, made it possible for researchers anywhere in the world to process samples through the use of a small, off-the-shelf sequencer, much like the one DeRisi had shown me in his lab, and then upload the results to the cloud for analysis.
  • he’s the first to make the process so accessible, even in countries where lab supplies and training are scarce. DeRisi and his team tested the chemicals used to prepare DNA for sequencing and determined that using as little as half the recommended amount often worked fine. They also 3-D print some of the labs’ tools and replacement parts, and offer ongoing training and tech support
  • The metagenomic analysis itself — normally the most expensive part of the process — is provided free.
  • But DeRisi’s main innovation has been in streamlining and simplifying the extraordinarily complex computational side of metagenomics
  • IDseq is also fast, capable of doing analyses in hours that would take other systems weeks.
  • “What IDseq really did was to marry wet-lab work — accumulating samples, processing them, running them through a sequencer — with the bioinformatic analysis,”
  • “Without that, what happens in a lot of places is that the researcher will be like, ‘OK, I collected the samples!’ But because they can’t analyze them, the samples end up in the freezer. The information just gets stuck there.”
  • Meningitis itself isn’t a disease, just a description meaning that the tissues around the brain and spinal cord have become inflamed. In the United States, bacterial infections can cause meningitis, as can enteroviruses, mumps and herpes simplex. But a high proportion of cases have, as doctors say, no known etiology: No one knows why the patient’s brain and spinal tissues are swelling.
  • When Saha and her team ran the mystery meningitis samples through IDseq, though, the result was surprising. Rather than revealing a bacterial cause, as expected, a third of the samples showed signs of the chikungunya virus — specifically, a neuroinvasive strain that was thought to be extremely rare. “At first we thought, It cannot be true!” Saha recalls. “But the moment Joe and I realized it was chikungunya, I went back and looked at the other 200 samples that we had collected around the same time. And we found the virus in some of those samples as well.”
  • Until recently, chikungunya was a comparatively rare disease, present mostly in parts of Central and East Africa. “Then it just exploded through the Caribbean and Africa and across Southeast Asia into India and Bangladesh,” DeRisi told me. In 2011, there were zero cases of chikungunya reported in Latin America. By 2014, there were a million.
  • Chikungunya is a mosquito-borne virus, but when DeRisi and Saha looked at the results from IDseq, they also saw something else: a primate tetraparvovirus. Primate tetraparvoviruses are almost unknown in humans, and have been found only in certain regions. Even now, DeRisi is careful to note, it’s not clear what effect the virus has on people. “Maybe it’s dangerous, maybe it isn’t,” DeRisi says. “But I’ll tell you what: It’s now on my radar.
  • it reveals a landscape of potentially dangerous viruses that we would otherwise never find out about. “What we’ve been missing is that there’s an entire universe of pathogens out there that are causing disease in humans,” Imam notes, “ones that we often don’t even know exist.”
  • “The plan was, Let’s let researchers around the world propose studies, and we’ll choose 10 of them to start,” DeRisi recalls. “We thought we’d get, like, a couple dozen proposals, and instead we got 350.”
  • Metagenomic sequencing is especially good at what scientists call “environmental sampling”: identifying, say, every type of bacteria present in the gut microbiome, or in a teaspoon of seawater.
  • “When you draw blood from someone who has a fever in Ghana, you really don’t know very much about what would normally be in their blood without fever — let alone about other kinds of contaminants in the environment. So how do you interpret the relevance of all the things you’re seeing?”
  • Such criticisms have led some to say that metagenomics simply isn’t suited to the infrastructure of developing countries. Along with the problem of contamination, many labs struggle to get the chemical reagents needed for sequencing, either because of the cost or because of shipping and customs holdups
  • we’re less likely to be caught off-guard. “With Ebola, there’s always an issue: Where’s the virus hiding before it breaks out?” DeRisi explains. “But also, once we start sampling people who are hospitalized more widely — meaning not just people in Northern California or Boston, but in Uganda, and Sierra Leone, and Indonesia — the chance of disastrous surprises will go down. We’ll start seeing what’s hidden.”
lucieperloff

How the 'Alpha' Coronavirus Variant Became So Powerful - The New York Times - 0 views

  • British researchers discovered that a new variant was sweeping through their country.
  • tended to become more common in its new homes as well
  • Alpha disables the first line of immune defense in our bodies, giving the variant more time to multiply.
  • ...10 more annotations...
  • . “Any successful virus has to get beyond that first defense system. The more successful it is at doing that, the better off the virus is.”
  • A lot of researchers focused their attention on the nine mutations that alter the so-called spike protein that covers the coronavirus and allows it to invade cells
  • They found that lung cells with Alpha made drastically less interferon, a protein that switches on a host of immune defenses.
  • It’s making itself more invisible,”
  • They found that Alpha-infected cells make a lot of extra copies — some 80 times more than other versions of the virus — of a gene called Orf9b.
  • dampening the production of interferon and a full immune response. The virus, protected from attack, has better odds of making copies of itself.
  • people infected with Alpha have a more robust reaction than they would with other variants, coughing and shedding virus-laden mucus from not only their mouths, but also their noses — making Alpha even better at spreading.
  • . They may have independently evolved their own tricks for manipulating our immune system.
  • But studies on people who recover naturally from Covid-19 have shown that their immune systems learn to recognize other viral proteins, including Orf9b.
  • “It’s quite a tricky enterprise, but becoming more possible as we learn more,”
edencottone

Ron DeSantis' Florida boast rings hollow (opinion) - CNN - 0 views

  • New cases of Covid-19 in the United States have fallen in the last two months to about 55,000 a day.
  • These numbers are promising, but the ups and downs and ups tell an important lesson about keeping perspective in a pandemic. Today's promising numbers would have been horrific at this time last year and are hardly as good as they need to be.
  • No one knows this more than the country's governors. Since the Trump White House dumped the job of handling the pandemic almost entirely into their laps, they have had to respond on the fly.
  • ...10 more annotations...
  • We are already seeing the first wave of "who won and who lost" sorts of stories pitting various governors' responses against each other in horse-race fashion, as if these were early polls for the 2024 presidential election.
  • Then reality stepped in. A surge of summer cases forced the imposition of some restrictions on Floridians, like local mask mandates imposed by mayors in some cities in South Florida.
  • Now DeSantis is claiming again to be a master of pandemic control, as Florida's beach-tourism-restaurant industry is said to be doing well. Never mind that the state's seven-day infection rate of 143.9 per 100,000 population places it 12th highest of the 50 states.
  • For example, as of March 22, over the last seven days, Florida has had the most Covid-19 cases in the country, according to data from the US Centers for Disease Control and Prevention (CDC), the 12th highest per capita case-rate, the fourth highest number of deaths, and the 17th highest death rate.
  • Once celebrated for his pandemic management, he is now getting poor marks on managing. He has not strutted or had roundtables of fan-doctors to sing his praise. But the fact is California's recent numbers are much better than those of Florida, coming in at about 47th in the country with a case-rate 46.8 per 100,000, according to the CDC's data, and fewer deaths as well.
  • Florida is ignoring the death toll and instead pushing the upbeat metrics the governor would like America to pay attention to: jobs are up! and schools are open! DeSantis stood up to the Covid-19 threat like John Wayne would have done!
  • Rather than wallow in reality, she chose to celebrate an active economy and the joys of hunting season (note: the South Dakota new-infection rate is climbing the charts once again and sits at 105 per 100,000 South Dakotans ).
  • These rate-the-governors perspectives ignore a basic fact: it is no time for trophies.
  • Worse, this obeisance to economic and social factors as measure of success creates a series of disturbing false equivalencies as they compare deaths against the economy.
  • Measuring Covid-19 management on anything other than the number of human lives lost is not only disgraceful, it will also almost certainly lead us to make all the wrong decisions once again and usher in yet another Covid-19 resurgence in the US.
jmfinizio

LA County records more than 1 million coronavirus cases - CNN - 0 views

  • Los Angeles has become the first US county to report more than 1 million coronavirus cases
  • The department also announced its first confirmed case of the UK Covid-19 B.1.1.7 variant Saturday,
  • Public Health said it believed the more contagious UK variant was likely already spreading in the community and urged residents to "more diligently" follow safety measures.
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  • our healthcare system is already severely strained with more than 7,500 people currently hospitalized,
  • "This more contagious variant makes it easier for infections to spread at worksites, at stores, and in our homes.
  • "It feels like you're waking up to a nightmare, every day. We are trying to make a dent in this huge pandemic of people that are getting sick, hearing how many people are dying every day, it's, it's unfathomable," he said.
  • Ortiz said a lot of the deaths from Covid-19 were unnecessary but that the vaccination program provided hope.
  • Coronavirus has already infected and killed more people in the US than in any other country.
colemorris

Los Angeles becomes first county to hit 1 million Covid-19 cases - 0 views

  • Los Angeles on Saturday became the first county in the nation to record 1 million coronavirus cases since the start of the pandemic.
  • “The presence of the U.K. variant in Los Angeles County is troubling, as our healthcare system is already severely strained with more than 7,500 people currently hospitalized,
  • On Saturday, Los Angeles reported 1,003,923 confirmed Covid-19 infections and 13,741 deaths.
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  • The state of California is also reporting staggering numbers with more than 2.9 million confirmed cases, according to NBC News counts. Texas, with 2 million cases, and Florida, with 1.5 million, are the next two states with the most infections. New York, which was one of the country’s first and biggest hot spots, has recorded 1.2 million cases to date.
  • But its faster spread will lead to more cases overall, the study authors wrote, "exacerbating the burden on an already strained health care system, and resulting in more deaths."
    • colemorris
       
      sad to think that things can get worse than this
  • Since then, rates have increased by 1,000 percent and have disproportionately affected Latinos, who comprise roughly half of the total population.
  • It will take a number of months to reach the level of vaccination needed in the population to curb ongoing transmission of the virus."
jmfinizio

Wuhan: Two WHO team members blocked from entering China over failed coronavirus antibody test - CNN - 0 views

  • Two members of a World Health Organization (WHO) team investigating the origins of the coronavirus pandemic have been blocked from flying to China after failing a coronavirus antibody test.
  • IgM antibodies are among the earliest potential signs of a coronavirus infection,
  • False positives are also possible with such tests.
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  • Since November 2020, travelers flying into China have to show neg
  • had previously been tested and found negative for coronavirus multiple times,
  • "I have been in contact with senior Chinese officials and I have once again made clear that the mission is a priority for WHO and the international team."
  • nothing is off limits
  • "We really need to have patience and not judge. It's meticulous work, it will take time,
  • the US would terminate its relationship with WHO,
  • "the investigation itself appears to be inconsistent" with its mandate.
  • As countries around the world struggle with new infection surges and outbreaks, China appears to be rebounding.
  • "more and more research suggests that the pandemic was likely to have been caused by separate outbreaks in multiple places in the world."
lucieperloff

New Study Suggests COVID-19 May Age Some Patients' Brains By 10 Years | HuffPost Life - 0 views

  • People recovering from COVID-19 may suffer significant brain function impacts, with the worst cases of the infection linked to mental decline equivalent to the brain aging by 10 years
  • People recovering from COVID-19 may suffer significant brain function impacts, with the worst cases of the infection linked to mental decline equivalent to the brain aging by 10 years
    • lucieperloff
       
      Permanent deficits? Or do these go away?
  • “Our analyses ... align with the view that there are chronic cognitive consequences of having COVID-19,” the researchers wrote in a report of their findings.
    • lucieperloff
       
      This is more than just a cold. There will likely also be more discovered about the disease as more people recover
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  • The cognitive deficits were “of substantial effect size,“particularly among people who had been hospitalized with COVID-19, the researchers said, with the worst cases showing impacts “equivalent to the average 10-year decline in global performance between the ages of 20 to 70.”
  • the study’s findings could not be entirely reliable, since they did not compare before and after scores, and involved a large number of people who self-reported having had COVID-19, who had no positive test.
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